Citrus Sinensis ID: 043946

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------20
Protein Sequence
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCCST
Secondary Structure (PSIPRED)
ccEEEEEEEccccccHHHHHHHHccccccccccccccEEEEEEEEEEccEEEEEEEEEcccccHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHcccccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEccccHHHccccHHHHHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
DYLFKLLLIgdsgvgksCLLLRFaddsyldsyistIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYdvtdqesfNNVKQWLNEIDRYASENVNKLLvgnkcdltdkkVVSYETAKAFAdeigipfmetsaKDSLNVEQAFMAMTADIKNrmasqpamnnarpptvqikgqpvnqkasccst
Flexible Loop (DISEMBL)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVdfkirtveqdgktvklqiwdtagqeRFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLlvgnkcdltdkKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNArpptvqikgqpvnqkasccst
Low Complexity Region (SEG)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCCST
Disordered region (IsUnstruct)
*YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMET***********F*****************************************
Disordered Region (DISOPRED)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD*****************************ASCCS*
Disordered Region (DISEMBL)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIK*************
Disordered Region (DISPRO)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCCST
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	198	2.2.26 [Sep-21-2011]
Q05737	203	GTP-binding protein YPTM2	N/A	no	1.0	0.975	0.893	1e-103
P28188	203	Ras-related protein RABD2	yes	no	1.0	0.975	0.878	1e-102
Q9SEH3	202	Ras-related protein RABD2	no	no	0.994	0.975	0.873	1e-101
P40392	202	Ras-related protein RIC1	no	no	0.994	0.975	0.857	1e-100
Q9FPJ4	202	Ras-related protein RABD2	no	no	0.994	0.975	0.873	1e-100
Q39571	203	GTP-binding protein YPTC1	N/A	no	0.989	0.965	0.822	2e-92
P31584	203	GTP-binding protein yptV1	N/A	no	0.989	0.965	0.812	2e-88
Q6NYB7	205	Ras-related protein Rab-1	yes	no	0.989	0.956	0.775	1e-87
P62821	205	Ras-related protein Rab-1	yes	no	0.989	0.956	0.775	1e-87
P62820	205	Ras-related protein Rab-1	yes	no	0.989	0.956	0.775	1e-87

>sp|Q05737|YPTM2_MAIZE GTP-binding protein YPTM2 OS=Zea mays GN=YPTM2 PE=2 SV=1

 Score =  373 bits (957), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 177/198 (89%), Positives = 187/198 (94%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS+NVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASDNVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVV+ ETAKAFADE+GIPFMETSAK++ NV+QAFMAM A IK+RMASQPA  NARP 
Sbjct: 126 TANKVVATETAKAFADEMGIPFMETSAKNATNVQQAFMAMAASIKDRMASQPAAANARPA 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK SCCS+
Sbjct: 186 TVQIRGQPVNQKTSCCSS 203

Protein transport. Probably involved in vesicular traffic.
Zea mays (taxid: 4577)

>sp|P28188|RAD2A_ARATH Ras-related protein RABD2a OS=Arabidopsis thaliana GN=RABD2A PE=1 SV=3

 Score =  371 bits (952), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 174/198 (87%), Positives = 187/198 (94%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRF+DDSY++SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFSDDSYVESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTD+ESFNNVKQWL+EIDRYAS+NVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDEESFNNVKQWLSEIDRYASDNVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T+ + + YETAKAFADEIGIPFMETSAKD+ NVEQAFMAM+A IK RMASQPA NNARPP
Sbjct: 126 TENRAIPYETAKAFADEIGIPFMETSAKDATNVEQAFMAMSASIKERMASQPAGNNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPV QK  CCST
Sbjct: 186 TVQIRGQPVAQKNGCCST 203

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SEH3|RAD2C_ARATH Ras-related protein RABD2c OS=Arabidopsis thaliana GN=RABD2C PE=1 SV=1

 Score =  366 bits (939), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 173/198 (87%), Positives = 187/198 (94%), Gaps = 1/198 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+ YDVTD ESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVTYDVTDLESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T +KVVS ETAKAFADE+GIPF+ETSAK++ NVE+AFMAMTA IK RMASQPA   ++PP
Sbjct: 126 TSQKVVSTETAKAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPA-GGSKPP 184

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQ++ CCS+
Sbjct: 185 TVQIRGQPVNQQSGCCSS 202

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|P40392|RIC1_ORYSJ Ras-related protein RIC1 OS=Oryza sativa subsp. japonica GN=RIC1 PE=2 SV=2

 Score =  365 bits (937), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 169/197 (85%), Positives = 184/197 (93%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            + +VVSYE  KA ADEIGIPF+ETSAKD+ NVE+AFM M  +IKNRMASQPA N ++P 
Sbjct: 126 AENRVVSYEAGKALADEIGIPFLETSAKDATNVEKAFMTMAGEIKNRMASQPATNASKPA 185

Query: 181 TVQIKGQPVNQKASCCS 197
           TVQ++GQPV Q++SCCS
Sbjct: 186 TVQMRGQPVAQQSSCCS 202

Possesses GTPase activity.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9FPJ4|RAD2B_ARATH Ras-related protein RABD2b OS=Arabidopsis thaliana GN=RABD2B PE=2 SV=1

 Score =  363 bits (932), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 173/198 (87%), Positives = 186/198 (93%), Gaps = 1/198 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+ YDVTD ESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVTYDVTDLESFNNVKQWLNEIDRYASENVNKLLVGNKNDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T +KVVS ETAKAFADE+GIPF+ETSAK++ NVE+AFMAMTA IK RMASQPA   A+PP
Sbjct: 126 TSQKVVSTETAKAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPA-GGAKPP 184

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQ++ CCS+
Sbjct: 185 TVQIRGQPVNQQSGCCSS 202

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q39571|YPTC1_CHLRE GTP-binding protein YPTC1 OS=Chlamydomonas reinhardtii GN=YPTC1 PE=3 SV=1

 Score =  337 bits (865), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 162/197 (82%), Positives = 175/197 (88%), Gaps = 1/197 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRTVE DGK +KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTVELDGKVIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y  AKAFADEIGIPF+ETSAK++ NVEQAFM M A+IKNRMASQP    A  P
Sbjct: 126 TSKKVVEYSVAKAFADEIGIPFLETSAKNATNVEQAFMTMAAEIKNRMASQPIPTKAGGP 185

Query: 181 TVQIK-GQPVNQKASCC 196
            V+ + G+P+N K+S C
Sbjct: 186 VVRPQEGKPINSKSSSC 202

Protein transport. Probably involved in vesicular traffic.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|P31584|YPTV1_VOLCA GTP-binding protein yptV1 OS=Volvox carteri GN=YPTV1 PE=3 SV=1

 Score =  324 bits (831), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 160/197 (81%), Positives = 174/197 (88%), Gaps = 1/197 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRTVE DGK +KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTVELDGKVIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLAEIDRYASENVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y+ AKAFADEIGIPF+ETSAK++ NVEQAFM M A+IKNRMASQP       P
Sbjct: 126 TGKKVVDYQAAKAFADEIGIPFLETSAKNATNVEQAFMTMAAEIKNRMASQPVPPKPGGP 185

Query: 181 TVQ-IKGQPVNQKASCC 196
            V+  +G+P+N K+S C
Sbjct: 186 VVRPTEGKPINNKSSSC 202

Protein transport. Probably involved in vesicular traffic.

Volvox carteri (taxid: 3067)

>sp|Q6NYB7|RAB1A_RAT Ras-related protein Rab-1A OS=Rattus norvegicus GN=Rab1A PE=1 SV=3

 Score =  322 bits (825), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 152/196 (77%), Positives = 165/196 (84%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 9   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 69  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct: 129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query: 181 TVQIKGQPVNQKASCC 196
            V+I+  PV Q    C
Sbjct: 189 NVKIQSTPVKQSGGGC 204

Probably required for transit of protein from the ER through Golgi compartment. Binds GTP and GDP and possesses intrinsic GTPase activity.

Rattus norvegicus (taxid: 10116)

>sp|P62821|RAB1A_MOUSE Ras-related protein Rab-1A OS=Mus musculus GN=Rab1A PE=1 SV=3

 Score =  322 bits (825), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 152/196 (77%), Positives = 165/196 (84%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 9   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 69  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct: 129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query: 181 TVQIKGQPVNQKASCC 196
            V+I+  PV Q    C
Sbjct: 189 NVKIQSTPVKQSGGGC 204

Probably required for transit of protein from the ER through Golgi compartment. Binds GTP and GDP and possesses intrinsic GTPase activity.

Mus musculus (taxid: 10090)

>sp|P62820|RAB1A_HUMAN Ras-related protein Rab-1A OS=Homo sapiens GN=RAB1A PE=1 SV=3

 Score =  322 bits (825), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 152/196 (77%), Positives = 165/196 (84%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 9   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 69  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct: 129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query: 181 TVQIKGQPVNQKASCC 196
            V+I+  PV Q    C
Sbjct: 189 NVKIQSTPVKQSGGGC 204

Probably required for transit of protein from the ER through Golgi compartment. Binds GTP and GDP and possesses intrinsic GTPase activity.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
224074217	203	predicted protein [Populus trichocarpa]	1.0	0.975	0.929	1e-107
390979747	203	small GTPase [Hevea brasiliensis]	1.0	0.975	0.934	1e-107
225454983	203	PREDICTED: GTP-binding protein YPTM2 [Vi	1.0	0.975	0.929	1e-107
359497565	207	PREDICTED: GTP-binding protein YPTM2 [Vi	1.0	0.956	0.924	1e-106
296083547	198	unnamed protein product [Vitis vinifera]	1.0	1.0	0.924	1e-106
255539911	203	protein with unknown function [Ricinus c	1.0	0.975	0.934	1e-106
255581964	203	protein with unknown function [Ricinus c	1.0	0.975	0.924	1e-106
359806422	202	uncharacterized protein LOC100783333 [Gl	0.994	0.975	0.934	1e-106
357122771	203	PREDICTED: GTP-binding protein YPTM2-lik	1.0	0.975	0.924	1e-106
224057960	203	predicted protein [Populus trichocarpa]	1.0	0.975	0.924	1e-105

>gi|224074217|ref|XP_002304305.1| predicted protein [Populus trichocarpa] gi|118485751|gb|ABK94725.1| unknown [Populus trichocarpa] gi|222841737|gb|EEE79284.1| predicted protein [Populus trichocarpa]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 184/198 (92%), Positives = 193/198 (97%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM A+IKNRMASQPAMNNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAAEIKNRMASQPAMNNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 186 TVQIRGQPVNQKSGCCSS 203

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|390979747|gb|AFM30910.1| small GTPase [Hevea brasiliensis]

 Score =  392 bits (1006), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 185/198 (93%), Positives = 192/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVE+AFMAM ADIKNRMASQPA NNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEEAFMAMAADIKNRMASQPAANNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 186 TVQIRGQPVNQKSGCCSS 203

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454983|ref|XP_002281150.1| PREDICTED: GTP-binding protein YPTM2 [Vitis vinifera] gi|297744977|emb|CBI38569.3| unnamed protein product [Vitis vinifera]

 Score =  391 bits (1005), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 184/198 (92%), Positives = 192/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM ADIK RMASQPAMNNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAADIKTRMASQPAMNNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           +VQ++GQPVNQK+ CCS+
Sbjct: 186 SVQLQGQPVNQKSGCCSS 203

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359497565|ref|XP_002265463.2| PREDICTED: GTP-binding protein YPTM2 [Vitis vinifera]

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/198 (92%), Positives = 192/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 10  DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 69

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 70  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 129

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM A+IKNRMASQPAMN ARPP
Sbjct: 130 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAAEIKNRMASQPAMNTARPP 189

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 190 TVQIRGQPVNQKSGCCSS 207

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083547|emb|CBI23542.3| unnamed protein product [Vitis vinifera]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/198 (92%), Positives = 192/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 61  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM A+IKNRMASQPAMN ARPP
Sbjct: 121 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAAEIKNRMASQPAMNTARPP 180

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 181 TVQIRGQPVNQKSGCCSS 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539911|ref|XP_002511020.1| protein with unknown function [Ricinus communis] gi|223550135|gb|EEF51622.1| protein with unknown function [Ricinus communis]

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 185/198 (93%), Positives = 191/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM ADIKNRMASQPA NNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAADIKNRMASQPAANNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 186 TVQIRGQPVNQKSGCCSS 203

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255581964|ref|XP_002531780.1| protein with unknown function [Ricinus communis] gi|223528573|gb|EEF30594.1| protein with unknown function [Ricinus communis]

 Score =  388 bits (997), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/198 (92%), Positives = 192/198 (96%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKNDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM A+IKNRMASQPAMNNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAAEIKNRMASQPAMNNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQK+ CCS+
Sbjct: 186 TVQIRGQPVNQKSGCCSS 203

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806422|ref|NP_001241498.1| uncharacterized protein LOC100783333 [Glycine max] gi|255636244|gb|ACU18462.1| unknown [Glycine max]

 Score =  388 bits (996), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 185/198 (93%), Positives = 192/198 (96%), Gaps = 1/198 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK++ NVEQAFMAM A+IKNRMASQP +NNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNATNVEQAFMAMAAEIKNRMASQP-VNNARPP 184

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQKA CCST
Sbjct: 185 TVQIRGQPVNQKAGCCST 202

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357122771|ref|XP_003563088.1| PREDICTED: GTP-binding protein YPTM2-like [Brachypodium distachyon]

 Score =  387 bits (995), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 183/198 (92%), Positives = 193/198 (97%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTMKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQ+SFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQDSFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           TDK+VVSYETAKAFADEIGIPFMETSAK++LNVEQAFMAM+A IK+RMASQPA NNARP 
Sbjct: 126 TDKRVVSYETAKAFADEIGIPFMETSAKNALNVEQAFMAMSASIKDRMASQPAANNARPA 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPV QK SCCS+
Sbjct: 186 TVQIRGQPVEQKTSCCSS 203

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224057960|ref|XP_002299410.1| predicted protein [Populus trichocarpa] gi|118481403|gb|ABK92644.1| unknown [Populus trichocarpa] gi|222846668|gb|EEE84215.1| predicted protein [Populus trichocarpa]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 183/198 (92%), Positives = 190/198 (95%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADDSYL+SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDSYLESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct: 66  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKSDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T  KVVSYETAKAFADEIGIPFMETSAK+++NVEQAFMAM ADIKNRMASQPA NNARPP
Sbjct: 126 TANKVVSYETAKAFADEIGIPFMETSAKNAINVEQAFMAMAADIKNRMASQPAANNARPP 185

Query: 181 TVQIKGQPVNQKASCCST 198
           TVQI+GQPVNQ   CCS+
Sbjct: 186 TVQIRGQPVNQNTGCCSS 203

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
TAIR|locus:2205603	203	RA-5 "RAS 5" [Arabidopsis thal	1.0	0.975	0.878	1e-91
TAIR|locus:2129161	202	RAB1C "RAB GTPase homolog 1C"	0.994	0.975	0.873	1.2e-90
TAIR|locus:2171484	202	RAB1A "RAB GTPase homolog 1A"	0.994	0.975	0.873	1.1e-89
UNIPROTKB|F1NNL7	205	RAB1A "Uncharacterized protein	0.989	0.956	0.776	2e-79
UNIPROTKB|A1L528	205	RAB1A "RAB1A, member RAS oncog	0.989	0.956	0.776	2.6e-79
UNIPROTKB|F1Q0H3	250	RAB1A "Ras-related protein Rab	0.989	0.784	0.776	2.6e-79
UNIPROTKB|P62822	205	RAB1A "Ras-related protein Rab	0.989	0.956	0.776	2.6e-79
UNIPROTKB|P62820	205	RAB1A "Ras-related protein Rab	0.989	0.956	0.776	2.6e-79
UNIPROTKB|F2Z5U4	202	RAB1A "Ras-related protein Rab	0.989	0.970	0.776	2.6e-79
UNIPROTKB|I3L6D2	201	RAB1A "Ras-related protein Rab	0.989	0.975	0.776	2.6e-79

TAIR|locus:2205603 RA-5 "RAS 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 914 (326.8 bits), Expect = 1.0e-91, P = 1.0e-91
 Identities = 174/198 (87%), Positives = 187/198 (94%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRF+DDSY++SYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct:     6 DYLFKLLLIGDSGVGKSCLLLRFSDDSYVESYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGIIIVYDVTD+ESFNNVKQWL+EIDRYAS+NVNKLLVGNK DL
Sbjct:    66 GQERFRTITSSYYRGAHGIIIVYDVTDEESFNNVKQWLSEIDRYASDNVNKLLVGNKSDL 125

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T+ + + YETAKAFADEIGIPFMETSAKD+ NVEQAFMAM+A IK RMASQPA NNARPP
Sbjct:   126 TENRAIPYETAKAFADEIGIPFMETSAKDATNVEQAFMAMSASIKERMASQPAGNNARPP 185

Query:   181 TVQIKGQPVNQKASCCST 198
             TVQI+GQPV QK  CCST
Sbjct:   186 TVQIRGQPVAQKNGCCST 203

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP;IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0000139 "Golgi membrane" evidence=IDA

GO:0032588 "trans-Golgi network membrane" evidence=IDA

TAIR|locus:2129161 RAB1C "RAB GTPase homolog 1C" [Arabidopsis thaliana (taxid:3702)]

 Score = 904 (323.3 bits), Expect = 1.2e-90, P = 1.2e-90
 Identities = 173/198 (87%), Positives = 187/198 (94%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct:     6 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+ YDVTD ESFNNVKQWLNEIDRYASENVNKLLVGNKCDL
Sbjct:    66 GQERFRTITSSYYRGAHGIIVTYDVTDLESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 125

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T +KVVS ETAKAFADE+GIPF+ETSAK++ NVE+AFMAMTA IK RMASQPA   ++PP
Sbjct:   126 TSQKVVSTETAKAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPA-GGSKPP 184

Query:   181 TVQIKGQPVNQKASCCST 198
             TVQI+GQPVNQ++ CCS+
Sbjct:   185 TVQIRGQPVNQQSGCCSS 202

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009555 "pollen development" evidence=IMP

GO:0009860 "pollen tube growth" evidence=IGI

GO:0009506 "plasmodesma" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2171484 RAB1A "RAB GTPase homolog 1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 173/198 (87%), Positives = 186/198 (93%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT+KLQIWDTA
Sbjct:     6 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTIKLQIWDTA 65

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+ YDVTD ESFNNVKQWLNEIDRYASENVNKLLVGNK DL
Sbjct:    66 GQERFRTITSSYYRGAHGIIVTYDVTDLESFNNVKQWLNEIDRYASENVNKLLVGNKNDL 125

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T +KVVS ETAKAFADE+GIPF+ETSAK++ NVE+AFMAMTA IK RMASQPA   A+PP
Sbjct:   126 TSQKVVSTETAKAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPA-GGAKPP 184

Query:   181 TVQIKGQPVNQKASCCST 198
             TVQI+GQPVNQ++ CCS+
Sbjct:   185 TVQIRGQPVNQQSGCCSS 202

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009860 "pollen tube growth" evidence=IGI

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

UNIPROTKB|F1NNL7 RAB1A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 798 (286.0 bits), Expect = 2.0e-79, P = 2.0e-79
 Identities = 153/197 (77%), Positives = 167/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     9 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    69 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q +  CC
Sbjct:   189 NVKIQSTPVKQSSGGCC 205

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

UNIPROTKB|A1L528 RAB1A "RAB1A, member RAS oncogene family" [Bos taurus (taxid:9913)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     9 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    69 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   189 NVKIQSTPVKQSGGGCC 205

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|F1Q0H3 RAB1A "Ras-related protein Rab-1A" [Canis lupus familiaris (taxid:9615)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:    54 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 113

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:   114 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 173

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   174 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 233

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   234 NVKIQSTPVKQSGGGCC 250

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|P62822 RAB1A "Ras-related protein Rab-1A" [Canis lupus familiaris (taxid:9615)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     9 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    69 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   189 NVKIQSTPVKQSGGGCC 205

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|P62820 RAB1A "Ras-related protein Rab-1A" [Homo sapiens (taxid:9606)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     9 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 68

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    69 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 128

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   129 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 188

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   189 NVKIQSTPVKQSGGGCC 205

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0003924 "GTPase activity" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

UNIPROTKB|F2Z5U4 RAB1A "Ras-related protein Rab-1A" [Sus scrofa (taxid:9823)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     6 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 65

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    66 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 125

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   126 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 185

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   186 NVKIQSTPVKQSGGGCC 202

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|I3L6D2 RAB1A "Ras-related protein Rab-1A" [Sus scrofa (taxid:9823)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 153/197 (77%), Positives = 166/197 (84%)

Query:     1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct:     5 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 64

Query:    61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
             GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct:    65 GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 124

Query:   121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct:   125 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 184

Query:   181 TVQIKGQPVNQKAS-CC 196
              V+I+  PV Q    CC
Sbjct:   185 NVKIQSTPVKQSGGGCC 201

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q05974	RAB1A_LYMST	No assigned EC number	0.7664	0.9898	0.9560	N/A	no
Q9SEH3	RAD2C_ARATH	No assigned EC number	0.8737	0.9949	0.9752	no	no
Q06AU7	RAB1B_PIG	No assigned EC number	0.7602	0.9848	0.9701	no	no
Q6NYB7	RAB1A_RAT	No assigned EC number	0.7755	0.9898	0.9560	yes	no
Q9D1G1	RAB1B_MOUSE	No assigned EC number	0.7551	0.9848	0.9701	no	no
Q05737	YPTM2_MAIZE	No assigned EC number	0.8939	1.0	0.9753	N/A	no
Q9ZRE2	RABD1_ARATH	No assigned EC number	0.7525	0.9898	0.9560	no	no
Q01890	YPT1_PHYIN	No assigned EC number	0.7448	0.9898	0.9751	N/A	no
P40392	RIC1_ORYSJ	No assigned EC number	0.8578	0.9949	0.9752	no	no
Q92928	RAB1C_HUMAN	No assigned EC number	0.7244	0.9848	0.9701	no	no
P28188	RAD2A_ARATH	No assigned EC number	0.8787	1.0	0.9753	yes	no
Q9FPJ4	RAD2B_ARATH	No assigned EC number	0.8737	0.9949	0.9752	no	no
Q9H0U4	RAB1B_HUMAN	No assigned EC number	0.7602	0.9848	0.9701	no	no
P11620	YPT1_SCHPO	No assigned EC number	0.7474	0.9898	0.9655	yes	no
P10536	RAB1B_RAT	No assigned EC number	0.75	0.9848	0.9701	no	no
P01123	YPT1_YEAST	No assigned EC number	0.6915	0.9898	0.9514	yes	no
Q39433	RB1BV_BETVU	No assigned EC number	0.5911	1.0	0.9209	N/A	no
Q5RE13	RAB1B_PONAB	No assigned EC number	0.7602	0.9848	0.9701	no	no
P62820	RAB1A_HUMAN	No assigned EC number	0.7755	0.9898	0.9560	yes	no
P62821	RAB1A_MOUSE	No assigned EC number	0.7755	0.9898	0.9560	yes	no
P62822	RAB1A_CANFA	No assigned EC number	0.7755	0.9898	0.9560	yes	no
P36861	YPTV2_VOLCA	No assigned EC number	0.5825	0.9898	0.9032	N/A	no
P34139	RAB1A_DICDI	No assigned EC number	0.7244	0.9848	0.9653	yes	no
P33723	YPT1_NEUCR	No assigned EC number	0.7424	0.9898	0.9655	N/A	no
Q4R5P1	RAB8A_MACFA	No assigned EC number	0.5567	0.9797	0.9371	N/A	no
Q4R8X3	RAB1B_MACFA	No assigned EC number	0.7551	0.9848	0.9701	N/A	no
P22125	RAB1_DIPOM	No assigned EC number	0.7704	0.9898	0.9702	N/A	no
Q2HJH2	RAB1B_BOVIN	No assigned EC number	0.7653	0.9848	0.9701	yes	no
Q39571	YPTC1_CHLRE	No assigned EC number	0.8223	0.9898	0.9655	N/A	no
Q52NJ2	RAB1A_PIG	No assigned EC number	0.7704	0.9898	0.9560	yes	no
P31584	YPTV1_VOLCA	No assigned EC number	0.8121	0.9898	0.9655	N/A	no
P16976	YPTM1_MAIZE	No assigned EC number	0.7192	1.0	0.9519	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	198
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-128
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-112
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-103
pfam00071	162	pfam00071, Ras, Ras family	2e-99
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	1e-94
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-82
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-82
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-77
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-75
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-72
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-69
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	7e-68
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-67
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	7e-66
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-63
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-63
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-62
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-62
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	4e-62
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	5e-62
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	2e-61
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	8e-58
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	7e-57
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	8e-56
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	1e-55
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-55
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-55
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-54
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-50
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	1e-47
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	2e-47
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-47
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-46
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	5e-42
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-41
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	6e-41
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	3e-40
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-39
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-37
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-37
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	4e-37
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	3e-36
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	3e-36
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	8e-36
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	4e-35
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	5e-35
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	7e-35
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-34
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	5e-34
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	3e-33
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	3e-33
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	5e-33
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-32
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	2e-32
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	5e-32
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	9e-32
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-31
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	4e-31
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	6e-31
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-30
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	5e-30
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	3e-27
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	7e-27
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	7e-26
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	7e-26
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-25
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	4e-24
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	4e-23
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	2e-22
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	3e-22
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	4e-22
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	1e-21
pfam08477	116	pfam08477, Miro, Miro-like protein	1e-21
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	1e-21
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	2e-20
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	4e-20
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	4e-20
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	8e-20
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	1e-18
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-18
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	9e-16
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	1e-15
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	3e-15
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	6e-15
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	8e-15
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	1e-14
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	1e-14
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	5e-14
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-12
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	3e-12
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	5e-12
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	7e-12
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	1e-11
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	2e-11
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	2e-11
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	5e-11
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	2e-10
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	5e-10
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	2e-09
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	3e-09
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	4e-09
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	4e-09
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	1e-08
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	2e-08
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	7e-08
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	5e-07
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	2e-06
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	3e-06
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	1e-05
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	2e-05
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	2e-05
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	1e-04
COG0486	454	COG0486, ThdF, Predicted GTPase [General function	4e-04
COG1161	322	COG1161, COG1161, Predicted GTPases [General funct	6e-04
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	0.001
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	0.002

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  356 bits (915), Expect = e-128
 Identities = 145/166 (87%), Positives = 154/166 (92%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           YLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKTVKLQIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDLT
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DKKVV Y  AK FADE+GIPF+ETSAK++ NVE+AFM M  +IK R
Sbjct: 121 DKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREIKKR 166

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  317 bits (814), Expect = e-112
 Identities = 113/167 (67%), Positives = 142/167 (85%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRF++DS+  S+ISTIG+DFKIRT+E DGK +KLQIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT+SYYRGA GII+VYD+TD++SF N+K W+  ID +ASE+V ++LVGNKCD+
Sbjct: 61  GQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDM 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            +K+VVS E  +A A E GI F+ETSAK ++NVE+AF+ +  DI  +
Sbjct: 121 EEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDILKK 167

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  293 bits (753), Expect = e-103
 Identities = 102/164 (62%), Positives = 128/164 (78%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK++LIGDSGVGKS LL RF D  + + Y STIGVDFK +T+E DGK VKLQIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR+ITSSYYRGA G ++VYD+T++ESF N++ WL E+  YAS NV  +LVGNK DL ++
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + VS E A+AFA+E G+PF ETSAK + NVE+AF  +  +I  R
Sbjct: 121 RQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score =  284 bits (729), Expect = 2e-99
 Identities = 98/162 (60%), Positives = 124/162 (76%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD GVGKS LL+RF  + + + YI TIGVDF  +T+E DGKTVKLQIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           FR +   YYRGA G ++VYD+T ++SF NVK+WL EI R+A ENV  +LVGNKCDL D++
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           VVS E  +A A E+G+PFMETSAK + NVE+AF  +  +I  
Sbjct: 121 VVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  272 bits (697), Expect = 1e-94
 Identities = 100/158 (63%), Positives = 126/158 (79%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK++LIGDSGVGK+ LLLRF D+ + ++Y STIGVDFK +T+E DGK VKLQIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR+ITSSYYRGAHG I+VYDVT++ESF N+ +WLNE+  YA  N+  +LVGNK DL D+
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT 161
           + VS E A+ FA E G+ F ETSAK   NV++AF ++ 
Sbjct: 121 RQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLA 158

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  241 bits (618), Expect = 1e-82
 Identities = 91/164 (55%), Positives = 120/164 (73%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT++ DGKT+K QIWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+T + +F NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDL 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  E AKAFA++ G+ F+ETSA D  NVE+AF  +  +I
Sbjct: 121 RHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  241 bits (616), Expect = 7e-82
 Identities = 109/196 (55%), Positives = 142/196 (72%), Gaps = 1/196 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFKLL+IGDSGVGKS LLLRFAD+++  SYI+TIGVDFKIRTVE +G+ VKLQIWDTA
Sbjct: 4   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITS+YYRG HG+I+VYDVT+ ESF NVK+WL EI++   ++V K+LVGNK D 
Sbjct: 64  GQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ-NCDDVCKVLVGNKNDD 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            ++KVV  E A  FA ++GI   ETSAK+++NVE+ F  +T  +        A    +  
Sbjct: 123 PERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQQ 182

Query: 181 TVQIKGQPVNQKASCC 196
              +K    +++   C
Sbjct: 183 NDVVKLPKNSKRKKRC 198

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  228 bits (584), Expect = 1e-77
 Identities = 91/155 (58%), Positives = 119/155 (76%), Gaps = 2/155 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+LLIGDSGVGKS LLLRF DD++ +   STIGVDFK++TV  DGK VKL IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           RFRT+TSSYYRGA G+I+VYDVT +++F+N+  WLNE+D Y+ + +  K+LVGNK D  +
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDK-E 119

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
            + V+ E  + FA +  + F+ETSAK  + V+QAF
Sbjct: 120 NREVTREEGQKFARKHNMLFIETSAKTRIGVQQAF 154

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  223 bits (570), Expect = 3e-75
 Identities = 88/161 (54%), Positives = 120/161 (74%), Gaps = 1/161 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK++LIGDS VGK+C++ RF   ++ +   +TIGVDF ++T+E  GK VKLQIWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT SYYR A+G II YD+T + SF +V  W+ E+++Y + NV  LL+GNKCDL
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

Query: 121 TDKKVVSYETAKAFADEIGIPF-METSAKDSLNVEQAFMAM 160
            +++ V +E A   A+  GI   +ETSAK+S NVE+AF+ M
Sbjct: 121 EEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLM 161

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  216 bits (552), Expect = 1e-72
 Identities = 88/163 (53%), Positives = 121/163 (74%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R +  DGK +KLQIWDTAG
Sbjct: 3   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAG 62

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QE FR+IT SYYRGA G ++VYD+T +E+FN++  WL +  ++++ N+  +L+GNKCDL 
Sbjct: 63  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE 122

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ VSYE  +AFA E G+ FMETSAK + NVE+AF+    +I
Sbjct: 123 SRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 165

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  210 bits (537), Expect = 1e-69
 Identities = 97/207 (46%), Positives = 139/207 (67%), Gaps = 9/207 (4%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS +L RF  + +     STIGV+F  RT++ +GKTVK QIWDTA
Sbjct: 10  DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA 69

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+T +++F+NV++WL E+  +A  N+  ++ GNK DL
Sbjct: 70  GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDL 129

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI-----KNRMASQPAMN 175
              + V+ E  +A A++ G+ F+ETSA ++ NVE+AF  +  +I     K  +A+Q A  
Sbjct: 130 NHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAA 189

Query: 176 NARPP----TVQIKGQPVNQKASCCST 198
           N+  P    T+ +     N K  CCST
Sbjct: 190 NSGLPGQGTTINVADTSGNNKRGCCST 216

Length = 216

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  204 bits (521), Expect = 7e-68
 Identities = 84/155 (54%), Positives = 123/155 (79%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FKLL+IG+S VGK+  L R+ADDS+  +++ST+G+DFK++TV ++ K +KLQIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           ER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   +LVGNKCD+ D
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           ++VVS E  +  AD++G  F E SAK+++NV+Q F
Sbjct: 121 ERVVSAERGRQLADQLGFEFFEASAKENINVKQVF 155

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  203 bits (518), Expect = 3e-67
 Identities = 77/156 (49%), Positives = 102/156 (65%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GDS VGKS ++LRF  + + ++  STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQE 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+R++   YYRGA   I+VYD+T +ESF   K W+ E+  +   N+   L GNK DL  K
Sbjct: 62  RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESK 121

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA 159
           + VS E A+ +ADE G+ FMETSAK   NV + F  
Sbjct: 122 RQVSTEEAQEYADENGLLFMETSAKTGENVNELFTE 157

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  201 bits (512), Expect = 7e-66
 Identities = 92/207 (44%), Positives = 126/207 (60%), Gaps = 11/207 (5%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
            YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R +  D K +KLQIWDTA
Sbjct: 4   AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQE FR+IT SYYRGA G ++VYD+T +E+FN++  WL +  ++A+ N+  +L+GNKCDL
Sbjct: 64  GQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDL 123

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA-----------DIKNRMA 169
             ++ VS E  + FA E G+ FME SAK + NVE+AF+   A           D+ N   
Sbjct: 124 AHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESY 183

Query: 170 SQPAMNNARPPTVQIKGQPVNQKASCC 196
                  A P     +    +Q   CC
Sbjct: 184 GIKVGYGAIPGASGGRDGTSSQGGGCC 210

Length = 210

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  194 bits (495), Expect = 1e-63
 Identities = 90/170 (52%), Positives = 127/170 (74%), Gaps = 1/170 (0%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           FK++L+GDSGVGK+CLL+RF D ++L  S+I+T+G+ F  + V  DG  VKLQIWDTAGQ
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           ERFR++T +YYR AH ++++YDVT++ SF+N++ WL EI  YA  +V  +L+GNK D++ 
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           ++VV  E  +  A E G+PFMETSAK  LNVE AF A+  ++K+R   QP
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQP 170

Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 191

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  193 bits (491), Expect = 3e-63
 Identities = 83/164 (50%), Positives = 121/164 (73%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK++LIG++GVGK+CL+ RF    +     +TIGVDF I+TVE  G+ +KLQIWDTA
Sbjct: 5   DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTA 64

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR+IT SYYR A+ +I+ YD+T +ESF  + +WL EI++YA+  V  +LVGNK DL
Sbjct: 65  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDL 124

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            +++ VS + A+ F+D   + ++ETSAK+S NVE+ F+ +   +
Sbjct: 125 AERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  190 bits (484), Expect = 3e-62
 Identities = 81/155 (52%), Positives = 107/155 (69%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK L+IG +G GKSCLL +F ++ +      TIGV+F  R V   GK+VKLQIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++T SYYRGA G ++VYD+T +ESFN +  WL +    AS ++  +LVGNK DL D 
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM 158
           + V++  A  FA E G+ F+ETSA    NVE+AF+
Sbjct: 121 REVTFLEASRFAQENGLLFLETSALTGENVEEAFL 155

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  191 bits (488), Expect = 3e-62
 Identities = 78/177 (44%), Positives = 117/177 (66%), Gaps = 10/177 (5%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE-QDGKTVKLQIWDTA 60
           Y F+L++IGDS VGKS LL RF +  + +    T+GVDF  R +E + G  +KLQ+WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-----LLVG 115
           GQERFR+IT SYYR + G+++V+D+T++ESF +V  WL E    A  ++       +LVG
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEE----ARSHIQPHRPVFILVG 116

Query: 116 NKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           +KCDL  ++ V+ E A+  A ++G+ ++ETSA+   NVE+AF  +T +I  R+    
Sbjct: 117 HKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRGE 173

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 211

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  190 bits (483), Expect = 4e-62
 Identities = 79/157 (50%), Positives = 109/157 (69%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y+FK ++IGD GVGKSCLL +F +  ++     TIGV+F  R +E +G+ +KLQIWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERFR +T SYYRGA G ++VYD+T + ++N++  WL +     + N    L+GNK DL 
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE 120

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM 158
            ++ V+YE AK FADE G+ F+E SAK   NVE AF+
Sbjct: 121 AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFL 157

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  189 bits (482), Expect = 5e-62
 Identities = 82/158 (51%), Positives = 116/158 (73%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           F+LLLIGDSGVGK+CLL RF D+ +  S+ISTIGVDFK++T+E DG  V++QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R++TIT  YYR A GI +VYD++ + S+ ++ +W++++D YA E V K+L+GNK D   K
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT 161
           + V  E     A E G+ F ETSA  + N++++F  +T
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  188 bits (479), Expect = 2e-61
 Identities = 69/154 (44%), Positives = 105/154 (68%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL+ +GD  VGK+ ++ RF  D++ + Y +TIG+DF  +T+  D KTV+LQ+WDTAGQE
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+++SF+N  +W++++      +V  +LVGNK DL+DK
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           + VS E  +  A E    F+ETSAK   NV+Q F
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLF 154

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  180 bits (457), Expect = 8e-58
 Identities = 82/165 (49%), Positives = 122/165 (73%), Gaps = 1/165 (0%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++++IG  GVGK+ L+ RF DD++ ++  ST+GVDFKI+TVE  GK ++LQIWDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           F +ITS+YYR A GII+VYD+T +E+F+++ +W+  ID+YASE+   LLVGNK D    +
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR 121

Query: 125 VVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ +  + FA +I G+ F E SAKD+ NV++ F+ +  DI  +M
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 166

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  176 bits (449), Expect = 7e-57
 Identities = 64/161 (39%), Positives = 102/161 (63%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK++L+G+  VGK+ L+LR+ ++ + + + ST    F  +TV   GK + L IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+  +   YYR A G I+VYD+TD +SF  VK+W+ E+ +    N++ ++VGNK DL  +
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           +VVS   A+ +A  +G    ETSAK    +E+ F+++   +
Sbjct: 121 RVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  174 bits (442), Expect = 8e-56
 Identities = 69/172 (40%), Positives = 110/172 (63%), Gaps = 5/172 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V LQIWDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCD 119
           RF+++  ++YRGA   ++VYDVT+ +SF ++  W +E    AS    EN   +++GNK D
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 120 LTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
           L +K+ VS + A+ +    G IP+ ETSAK+++NV+QAF  +      +   
Sbjct: 121 LEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALEQEKE 172

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  173 bits (441), Expect = 1e-55
 Identities = 76/168 (45%), Positives = 113/168 (67%), Gaps = 5/168 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK+++IGDS VGK+CL  RF    + +   +TIGVDF+ RTVE DG+ +K+Q+WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 64  RFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLT 121
           RFR ++   YYR  H ++ VYDVT+  SF+++  W+ E ++++    V ++LVGNKCDL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR 122

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKD---SLNVEQAFMAMTADIKN 166
           ++  V  + A+ FAD   +P  ETSAKD   + +VE  FM +   +K+
Sbjct: 123 EQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKLKS 170

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  173 bits (440), Expect = 1e-55
 Identities = 66/154 (42%), Positives = 95/154 (61%), Gaps = 2/154 (1%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++G  GVGKS L +RF    +++ Y  TI  D   + +  DG+T  L I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDK 123
           F  +   Y R   G I+VY +T +ESF  +K    +I R    E+V  +LVGNKCDL ++
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           + VS E  +A A+E G PF+ETSAK ++N+++ F
Sbjct: 120 RQVSTEEGEALAEEWGCPFLETSAKTNINIDELF 153

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  173 bits (439), Expect = 3e-55
 Identities = 75/179 (41%), Positives = 117/179 (65%), Gaps = 11/179 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD----------GK 50
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  +            
Sbjct: 2   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAF 61

Query: 51  TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
            V LQ+WDTAGQERFR++T++++R A G ++++D+T ++SF NV+ W++++  +A  EN 
Sbjct: 62  RVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENP 121

Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L+GNK DL D++ VS   A+  AD+ GIP+ ETSA    NVE+A   +   I  RM
Sbjct: 122 DIVLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 180

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  172 bits (437), Expect = 1e-54
 Identities = 97/205 (47%), Positives = 124/205 (60%), Gaps = 13/205 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D  FK+LLIGDSGVGKS LL+ F   S  D    TIGVDFKI+ +   GK +KL IWDTA
Sbjct: 12  DLSFKILLIGDSGVGKSSLLVSFISSSVED-LAPTIGVDFKIKQLTVGGKRLKLTIWDTA 70

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYAS-ENVNKLLVGNKC 118
           GQERFRT+TSSYYR A GII+VYDVT +E+F N+   W  E++ Y++ ++  K+LVGNK 
Sbjct: 71  GQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKV 130

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR 178
           D   ++ VS E   A A E G  F+E SAK   NVEQ F  +   I       P++    
Sbjct: 131 DRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKI----MEVPSLLEEG 186

Query: 179 PPTVQ---IKGQPVNQKAS---CCS 197
              V+   +K +P +Q      CCS
Sbjct: 187 STAVKRNILKQKPEHQPPPNGGCCS 211

Length = 211

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  161 bits (409), Expect = 2e-50
 Identities = 74/201 (36%), Positives = 111/201 (55%), Gaps = 8/201 (3%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT-VKLQIWDTAGQ 62
           FK+L+IGD GVGK+ ++ R+    +   Y +TIGVDF ++ +E D  T V+LQ+WD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEID---RYASEN-VNKLLVGNKC 118
           ERF  +T  YY+GA G IIV+DVT   +F  V +W  ++D      +   +  LL+ NKC
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 119 DL-TDKKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMTADI-KNRMASQPAMN 175
           DL  ++     E    F  E G   + ETSAK+++N+E+A   +  +I KN    Q    
Sbjct: 121 DLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGLQSPEP 180

Query: 176 NARPPTVQIKGQPVNQKASCC 196
           +        +    ++  SCC
Sbjct: 181 DEDNVIDLKQETTTSKSKSCC 201

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  153 bits (388), Expect = 1e-47
 Identities = 66/165 (40%), Positives = 102/165 (61%), Gaps = 2/165 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    ++D Y  TI  D   + +E DG+   L I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTD 122
            F  +   Y R   G ++VY +TD++SF  + ++  +I R    ++V  +LVGNKCDL +
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLEN 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           ++VVS E  K  A + G PF+ETSAK+ +NV++AF  +  +I+  
Sbjct: 122 ERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREIRKS 166

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  152 bits (387), Expect = 2e-47
 Identities = 67/163 (41%), Positives = 102/163 (62%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    ++D Y  TI  D   + +E DG+   L I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTD 122
            F  +   Y R   G ++VY +TD++SF  +K++  +I R    ++V  +LVGNKCDL  
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES 119

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++VVS E  K  A + G PF+ETSAK+ +NV++AF  +  +I+
Sbjct: 120 ERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR 162

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score =  152 bits (386), Expect = 4e-47
 Identities = 78/180 (43%), Positives = 111/180 (61%), Gaps = 9/180 (5%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYL K LL+GDS VGK  +L    D S    Y   +G+D+K  T+  DG+ VKLQ+WDT+
Sbjct: 4   DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTS 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQ RF TI  SY RGA GII+VYD+T++ SF+ + +W+ EID +A   V K+LVGN+  L
Sbjct: 64  GQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNRLHL 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
             K+ V+ E A+A+A+  G+ F E S   + N+ ++F  +      R+     M + RPP
Sbjct: 123 AFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELA-----RIV---LMRHGRPP 174

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 189

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score =  152 bits (384), Expect = 2e-46
 Identities = 70/213 (32%), Positives = 102/213 (47%), Gaps = 19/213 (8%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FK++++GD GVGK+ LL R   D + + Y  TIG     +T+E   + +KLQ+WDTAGQE
Sbjct: 6   FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +R++   YYRGA+GI+IVYD T +ES + + + WL E+   A ++V  LLVGNK DL D
Sbjct: 66  EYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFD 125

Query: 123 ------------KKVVSYETAKAFADE---IGIPFMETSAK--DSLNVEQAFMAMTADIK 165
                        + V        A          +ETSAK     NV + F  +   + 
Sbjct: 126 EQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLL 185

Query: 166 NRMASQPAMNNARPPTVQI-KGQPVNQKASCCS 197
             +      N  R         +     +  C 
Sbjct: 186 EEIEKLVLKNELRQLDRLNNPIEQAALASFNCV 218

Length = 219

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  138 bits (350), Expect = 5e-42
 Identities = 68/162 (41%), Positives = 101/162 (62%), Gaps = 6/162 (3%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V LQIWDTAGQ
Sbjct: 5   LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKC 118
           ERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA     E+   +++GNK 
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 119 DLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA 159
           D+ +++ VS E A+A+  + G  P+ ETSAKD+ NV  AF  
Sbjct: 125 DIPERQ-VSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEE 165

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  137 bits (348), Expect = 1e-41
 Identities = 60/155 (38%), Positives = 92/155 (59%), Gaps = 3/155 (1%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE--QDGKTVKLQIWDTAGQ 62
           K++++G+  VGKS ++ RF    +   Y  TIGVDF  + +   Q  + V+L +WDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           E F  IT +YYRGA   I+V+  TD+ESF  ++ W  +++     ++  +LV  K DL D
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLD 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           + V++ E A+A A  + +P   TS KD  NV + F
Sbjct: 121 QAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELF 155

Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  135 bits (343), Expect = 6e-41
 Identities = 50/158 (31%), Positives = 92/158 (58%), Gaps = 5/158 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++ +G+SGVGKSC++ R+ +  ++  Y+ TIG+D+ ++ V    K V++  +D +G   
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-----ASENVNKLLVGNKCD 119
           +  + + +Y+   G+++VYDVTD++SF  +  WL E+ +        EN+  ++  NK D
Sbjct: 62  YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKID 121

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           LT  + VS +  + +A+  G  + ETSA     V + F
Sbjct: 122 LTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMF 159

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 168

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score =  134 bits (338), Expect = 3e-40
 Identities = 61/158 (38%), Positives = 93/158 (58%), Gaps = 2/158 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    ++  Y  TI  D   +  E DG+  +L I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAGQE 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
            F  +   Y R   G ++V+ VTD+ SF  V ++  +I R    +    +LVGNK DL  
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEH 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           ++ VS E  +  A ++ IP++ETSAKD +NV++AF  +
Sbjct: 122 QRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDL 159

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score =  132 bits (334), Expect = 2e-39
 Identities = 56/166 (33%), Positives = 83/166 (50%), Gaps = 15/166 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GD  VGK+CLL+ +  + +   Y+ T+  D     V  DGK V L +WDTAGQE 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK  W  EI  Y   NV  +LVG K DL D 
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDLRDD 119

Query: 123 ----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                     +K ++ E  +  A EIG + +ME SA     +++ F
Sbjct: 120 GNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVF 165

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score =  127 bits (320), Expect = 2e-37
 Identities = 66/163 (40%), Positives = 100/163 (61%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++G  GVGKS L L+F  D +++ Y  T   D   + V  DG+ V+L I DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQE 59

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
            +  I  +Y+R   G ++V+ +TD ESF  + ++  +I R    +NV  LLVGNKCDL D
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLED 119

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           K+ VS E A   A++ G+ ++ETSAK   NV++ F  +  +I+
Sbjct: 120 KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIR 162

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  127 bits (320), Expect = 3e-37
 Identities = 64/197 (32%), Positives = 97/197 (49%), Gaps = 10/197 (5%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDS-YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           K++++G   VGK+ L+ R+    +L   Y +TIG  F  + +    + V L IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL--- 120
           R+  ++  YYRGA   I+ YD+TD  SF   K W+ E+ +   E+    L G K DL   
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKEL-QNLEEHCKIYLCGTKSDLIEQ 120

Query: 121 -TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP 179
               + V +   + FADEI     ETS+K   NV++ F  +  D  +R  +Q        
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRANNQMNTEKG-- 178

Query: 180 PTVQIKGQPVNQKASCC 196
             V +  +  +   SCC
Sbjct: 179 --VDLGQKKNSYFYSCC 193

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 193

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score =  126 bits (318), Expect = 4e-37
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 3/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI  D   + V  DG+T  L I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ +  ++SF ++  +  +I R   S++V  +LVGNKCDL  
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            + VS    +  A   GIP++ETSAK    VE+AF  +  +I+
Sbjct: 121 -RTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREIR 162

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score =  124 bits (312), Expect = 3e-36
 Identities = 64/163 (39%), Positives = 98/163 (60%), Gaps = 3/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    ++D Y  TI  D   + +E D +   L+I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q+SFN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 123 KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADI 164
           ++VVS E  +  A + G  PF+ETSAK  +NV++ F  +   I
Sbjct: 121 ERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  123 bits (311), Expect = 3e-36
 Identities = 59/156 (37%), Positives = 92/156 (58%), Gaps = 2/156 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++++G  GVGKS L ++F   ++++ Y  TI  DF  + +E D     L+I DTAG E
Sbjct: 2   YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
           +F ++   Y +   G I+VY + +Q++F ++K   ++I R    E V  +LVGNK DL  
Sbjct: 61  QFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLES 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM 158
           ++ VS    +A A+E G PFMETSAK    V + F 
Sbjct: 121 EREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFA 156

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  123 bits (311), Expect = 8e-36
 Identities = 62/161 (38%), Positives = 95/161 (59%), Gaps = 2/161 (1%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K+ ++G   VGKS L ++F +  +++SY  TI   F  + +   G+   L+I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDK 123
           +  +   Y  G HG I+VY VT ++SF  VK   ++I D    E+V  +LVGNK DL  +
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHME 121

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + VS E  K  A+  G  F+E+SAK++ NVE+AF  +  +I
Sbjct: 122 RQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI 162

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score =  121 bits (306), Expect = 4e-35
 Identities = 56/166 (33%), Positives = 87/166 (52%), Gaps = 16/166 (9%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           L+++GD  VGK+CLL+ +  +++ + Y+ T+  ++    VE DGK V+L +WDTAGQE +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDY 59

Query: 66  RTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK 124
             +    Y      +I + V    SF NVK +W  E+  +   NV  +LVG K DL + K
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGTKLDLRNDK 118

Query: 125 V------------VSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                        V+YE  +A A  IG + ++E SA     V + F
Sbjct: 119 STLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVF 164

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score =  120 bits (303), Expect = 5e-35
 Identities = 59/153 (38%), Positives = 88/153 (57%), Gaps = 4/153 (2%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++L+GDS VGKS L+ RF  D Y    +ST  +       + +GKT+ +  WDTAGQER
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           F+T+ +SYY  AH  I+V+DVT + ++ N+ +W  E+  Y  E +  ++V NK D  D  
Sbjct: 62  FQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPE-IPCIVVANKID-LDPS 119

Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           V   +    FA++  +P    SA D  NV + F
Sbjct: 120 VT--QKKFNFAEKHNLPLYYVSAADGTNVVKLF 150

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 161

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score =  120 bits (303), Expect = 7e-35
 Identities = 52/157 (33%), Positives = 76/157 (48%), Gaps = 4/157 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDS-YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
            K++++GD  VGKS LL R   +   +  Y      ++    +E+DGKT K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTD-QESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDL 120
           E +  I   YYR     + V+D+         + +    EI  +A   V  +LVGNK DL
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
            D K +    A  FA   G P +  SA+   N++ AF
Sbjct: 122 RDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAF 157

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score =  119 bits (301), Expect = 1e-34
 Identities = 66/164 (40%), Positives = 92/164 (56%), Gaps = 9/164 (5%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GD  VGK+CL+ RF  D +  +Y +TIGVDF++   E  G    LQ+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN----VNKLLVGNKCDL 120
           F+ I S+YYRGA  IIIV+D+TD  S  + +QWL +  +   EN    V   LVG K DL
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALK---ENDPSSVLLFLVGTKKDL 118

Query: 121 TDKKVVSYETAKA--FADEIGIPFMETSAKDSLNVEQAFMAMTA 162
           +     +     A   A E+   +   SA    NV   F  + +
Sbjct: 119 SSPAQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVAS 162

Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score =  118 bits (297), Expect = 5e-34
 Identities = 61/164 (37%), Positives = 97/164 (59%), Gaps = 2/164 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI   ++ + VE DG+   L+I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G ++VY +T Q +FN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           ++VV  E  +  A + G  F+ETSAK  +NV + F  +   I  
Sbjct: 121 ERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 164

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  117 bits (296), Expect = 3e-33
 Identities = 57/167 (34%), Positives = 89/167 (53%), Gaps = 4/167 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK-TVKLQIWDTAGQ 62
            K++++GD   GK+ L+ RFA + +  SY  TIG+DF  R +   G   V LQ+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCD 119
           +    +   Y  GA  + +VYD+T+ +SF N++ WL+ + +   E+  K   +LVGNK D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           L   + V+ E    FA E  +  +  SAK    V   F  + A++  
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLG 167

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  116 bits (292), Expect = 3e-33
 Identities = 58/156 (37%), Positives = 94/156 (60%), Gaps = 3/156 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++++G  GVGKS L ++F  + +++SY  TI   ++ + VE DG+   L+I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGTE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G ++VY VT + S N + +   ++ R   S+NV  +LVGNK DL D
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLED 120

Query: 123 KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            + VS E   + + + G +PF ETSA+   NV++ F
Sbjct: 121 DRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVF 156

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 168

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score =  115 bits (290), Expect = 5e-33
 Identities = 59/164 (35%), Positives = 94/164 (57%), Gaps = 7/164 (4%)

Query: 5   KLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTV--EQDGKTVKLQIWDTA 60
           +  ++GD  VGKS L+  F  D  ++  +Y  T G D  ++TV       +V+L I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK--LLVGNKC 118
           GQE F  +  + +     + +VYDVT++ SFNN  +W+N + R  S  ++   +LVGNKC
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRV-RTHSHGLHTPGVLVGNKC 120

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA 162
           DLTD++ V    A+A A    + F ETSAK+ +  E  F+++  
Sbjct: 121 DLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 164

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score =  116 bits (292), Expect = 1e-32
 Identities = 63/196 (32%), Positives = 98/196 (50%), Gaps = 18/196 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD GVGK+  + R     +   YI T+GV+        +   +   +WDTAGQE
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQE 69

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY      II++DVT + ++ NV  W  +I R   EN+  +LVGNK D+ D+
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVR-VCENIPIVLVGNKVDVKDR 128

Query: 124 KVVSYETAKA----FADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR----MASQPAMN 175
           +V      KA    F  +  + + + SAK + N E+ F+ +   + N         PA+ 
Sbjct: 129 QV------KARQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDPNLVFVGAPAL- 181

Query: 176 NARPPTVQIKGQPVNQ 191
              P  +QI  + V Q
Sbjct: 182 --APEEIQIDPELVAQ 195

Length = 215

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  114 bits (288), Expect = 2e-32
 Identities = 60/163 (36%), Positives = 94/163 (57%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F  + ++D Y  TI   ++ +    D +T  L I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQE 64

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKCDLTD 122
            +  +   Y R   G + VY +T + SF  +  +  +I R   ++ V  +LVGNKCDL  
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS 124

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++ VS    +  A   GIPF+ETSAK  +NV++AF  +  +I+
Sbjct: 125 ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIR 167

Length = 189

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  113 bits (284), Expect = 5e-32
 Identities = 60/141 (42%), Positives = 88/141 (62%)

Query: 26  DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDV 85
           D++ ++Y STIG+DF  +T+  D   V+LQ+WDTAGQERFR++  SY R +   I+VYD+
Sbjct: 3   DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDI 62

Query: 86  TDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMET 145
           T+++SF N  +W+ +I     ++V   LVGNK DL D + V+YE     A E    F ET
Sbjct: 63  TNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHET 122

Query: 146 SAKDSLNVEQAFMAMTADIKN 166
           SAK   N++  F  + A + N
Sbjct: 123 SAKAGHNIKVLFKKIAAKLPN 143

Length = 176

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score =  112 bits (282), Expect = 9e-32
 Identities = 51/155 (32%), Positives = 83/155 (53%), Gaps = 3/155 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   ++  +WDTAGQE
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY      II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 119

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM 158
           KV        F  +  + + E SAK + N E+ F+
Sbjct: 120 KV--KPKQITFHRKKNLQYYEISAKSNYNFEKPFL 152

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score =  111 bits (278), Expect = 4e-31
 Identities = 51/163 (31%), Positives = 74/163 (45%), Gaps = 13/163 (7%)

Query: 7   LLIGDSGVGKSCLLLRFADDSYL---DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +++G  GVGKS LL            D   +T   D      E D   VKL + DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVY--VKELDKGKVKLVLVDTPGLD 58

Query: 64  RF-----RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKC 118
            F       +     RGA  I++V D TD+ES  + K  L  + R   E +  +LVGNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAK--LLILRRLRKEGIPIILVGNKI 116

Query: 119 DLTDKKVVSYET-AKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           DL +++ V      +  A  +G+P  E SAK    V++ F  +
Sbjct: 117 DLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKL 159

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score =  112 bits (281), Expect = 4e-31
 Identities = 55/189 (29%), Positives = 97/189 (51%), Gaps = 22/189 (11%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFK--IRTVE-QDGKTVKLQIW 57
           D   K++++GD G GK+CLL+ +A  S+ + Y+ T+   F+  + T++  +GK ++L +W
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV---FENYVTTLQVPNGKIIELALW 57

Query: 58  DTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGN 116
           DTAGQE +  +    Y     I+I Y V +  S +NV+ +W  E++ +       +LVG 
Sbjct: 58  DTAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFC-PGTPIVLVGL 116

Query: 117 KCDL------------TDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTA 162
           K DL               + V+ E  ++ A  IG + ++E SAK   NV++ F  A+  
Sbjct: 117 KTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINV 176

Query: 163 DIKNRMASQ 171
            +     + 
Sbjct: 177 ALSKSGRAA 185

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score =  111 bits (278), Expect = 6e-31
 Identities = 55/156 (35%), Positives = 95/156 (60%), Gaps = 4/156 (2%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD GVGK+ L ++   + ++++Y  TI   ++ + V  DG+   L++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEE 59

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY---ASENVNKLLVGNKCDLT 121
           +  +   + R   G I+VY +T + +F  V+++  +I R    ++ +V  ++VGNKCD  
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
            ++ VS E   A A  +G  F+E SAK ++NVE+AF
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAF 155

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 190

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  109 bits (274), Expect = 1e-30
 Identities = 56/158 (35%), Positives = 81/158 (51%), Gaps = 6/158 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K+ ++G SGVGKS L +RF    ++  Y   +   +  R V  DG+ V L+I DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYS-RQVTIDGEQVSLEIQDTPGQQQ 59

Query: 65  FRT--ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE--NVNKLLVGNKCDL 120
                      R A G ++VY +TD+ SF+ V Q L  I         +  +LVGNK DL
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADL 119

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSA-KDSLNVEQAF 157
              + VS E  +  A E+G  F E SA ++ L V+  F
Sbjct: 120 LHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVF 157

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity. Length = 166

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score =  108 bits (271), Expect = 5e-30
 Identities = 60/172 (34%), Positives = 91/172 (52%), Gaps = 3/172 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++++G  GVGKS + ++F   S+ D +  TI   +K +    D +   L I DTAGQ 
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQAR-IDNEPALLDILDTAGQA 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            F  +   Y R   G II Y VTD+ SF    ++   I R   +E++  +LVGNK DL  
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQ 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAM 174
           ++ V+ E  +  A E   PF ETSA     ++ AF  +  +I+ R  S PA+
Sbjct: 122 QRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIR-RKESMPAL 172

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score =  102 bits (256), Expect = 3e-27
 Identities = 58/189 (30%), Positives = 92/189 (48%), Gaps = 18/189 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+++GD G GK+  + R     +   Y  TIGV+        +   ++   WDTAGQE
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE 73

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY      II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ ++
Sbjct: 74  KFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCR-VCENIPIVLCGNKVDVKNR 132

Query: 124 KV----VSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMN 175
           +V    V++   K       + + E SAK + N E+ F+     +  D        PA+ 
Sbjct: 133 QVKAKQVTFHRKK------NLQYYEISAKSNYNFEKPFLYLARKLAGDPNLHFVESPAL- 185

Query: 176 NARPPTVQI 184
              PP VQI
Sbjct: 186 --APPEVQI 192

Length = 219

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score =  101 bits (253), Expect = 7e-27
 Identities = 59/178 (33%), Positives = 88/178 (49%), Gaps = 2/178 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++++L+GDSGVGKS L   F    Y DS     G D   RTV  DG+   L ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
               +  S  +     +IVY VTD+ SF    +   ++ R   +E++  +LVGNK DL  
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVR 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            + VS +  +A A      F+ETSA    NV++ F  +   ++ R  S+   N  R  
Sbjct: 121 SREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIVRQVRLRRDSKEK-NTRRMA 177

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 97.5 bits (243), Expect = 7e-26
 Identities = 54/167 (32%), Positives = 87/167 (52%), Gaps = 16/167 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +L+GD  VGK+ L++ +  + Y   Y+ T   +F +  V  DGK V+LQ+ DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQDE 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDL-TD 122
           F  +    Y      ++ + V +  SF N+  +W+ EI ++ +     +LVG + DL TD
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLRTD 119

Query: 123 KKV-----------VSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
             V           VS   AKA A++IG   ++E SA    N+++ F
Sbjct: 120 VNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 97.2 bits (242), Expect = 7e-26
 Identities = 53/157 (33%), Positives = 80/157 (50%), Gaps = 4/157 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +++++ G  GVGKS L+LRF   ++ +SYI TI   ++ + +        LQI DT G  
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR-QVISCSKSICTLQITDTTGSH 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCDL 120
           +F  +        H  I+VY +T ++S   +K     I      N+ K   +LVGNKCD 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           +  + VS     A A      FMETSAK + NV++ F
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELF 157

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 96.3 bits (240), Expect = 3e-25
 Identities = 56/174 (32%), Positives = 93/174 (53%), Gaps = 22/174 (12%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE- 63
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 61

Query: 64  --RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDL 120
             R R ++   Y     I++ + +   +S  N+ + W  E+ ++   NV  +LVGNK DL
Sbjct: 62  YDRLRPLS---YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDL 117

Query: 121 ------------TDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT 161
                         ++ V  E  +A A++IG   ++E SAK    V + F   T
Sbjct: 118 RNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFEMAT 171

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 93.7 bits (233), Expect = 4e-24
 Identities = 58/169 (34%), Positives = 84/169 (49%), Gaps = 14/169 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+ LL  F    + + Y  T+  ++ +     DGK V+L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEE 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y  AH I+I + +   +S  NV+  W+ E+ RY   NV  +LVG K DL  +
Sbjct: 62  YERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQE 120

Query: 124 KV----------VSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMAMT 161
            V          V  + AK  A  IG   +ME SA     V+  F A T
Sbjct: 121 AVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFEAAT 169

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 91.2 bits (226), Expect = 4e-23
 Identities = 52/180 (28%), Positives = 89/180 (49%), Gaps = 10/180 (5%)

Query: 9   IGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI 68
           +GD G GK+  + R     +   Y++T+GV+        +   ++  +WDTAGQE+F  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 69  TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY 128
              YY      II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+KV + 
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKDRKVKAK 119

Query: 129 ETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARPPTVQI 184
                F  +  + + + SAK + N E+ F+     +  D      + PA+    PP V +
Sbjct: 120 SI--TFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---APPEVVM 174

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 90.0 bits (223), Expect = 2e-22
 Identities = 69/225 (30%), Positives = 106/225 (47%), Gaps = 39/225 (17%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++L+GD  VGK+ LL R+ +  + D+ +ST+G  F ++   Q G    + IWDTAG+E+
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRFKDT-VSTVGGAFYLK---QWG-PYNISIWDTAGREQ 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT--- 121
           F  + S Y RGA  +I+ YDV++ +S   ++     +   A+E+    +VGNK DLT   
Sbjct: 57  FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEG 116

Query: 122 ----------------DKKVVSYETAKAFADEI--------------GIPFMETSAKDSL 151
                           D++ V+ E AKAF   I                   ETSAK   
Sbjct: 117 ALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGY 176

Query: 152 NVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCC 196
           NV++ F  +   +   + +Q A  N    TV     P   K+ CC
Sbjct: 177 NVDELFEYLFNLVLPLILAQRAEANRTQGTVN-LPNPKRSKSKCC 220

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 220

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 88.0 bits (218), Expect = 3e-22
 Identities = 57/167 (34%), Positives = 88/167 (52%), Gaps = 14/167 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K + +GD  VGK+C+L+ +  +++   Y+ T+  +F    V  DG TV L +WDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSA-NVVVDGNTVNLGLWDTAGQED 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    YRGA   ++ + +  + S+ NV K+W+ E+  YA   V  +LVG K DL D 
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYAP-GVPIVLVGTKLDLRDD 120

Query: 124 K--------VVSYETAKA--FADEIGIP-FMETSAKDSLNVEQAFMA 159
           K         V   TA+      +IG   ++E S+K   NV+  F A
Sbjct: 121 KQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDA 167

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 88.2 bits (219), Expect = 4e-22
 Identities = 44/167 (26%), Positives = 90/167 (53%), Gaps = 6/167 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K+ L+GD+ +GK+ L++++ +  + + YI T+GV+F  +T+   G  +   IWD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL---- 120
           F  +     + A  I+ ++D+T + + N++K+W  +  R  ++    +LVG K DL    
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQA-RGFNKTAIPILVGTKYDLFADL 120

Query: 121 -TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
             +++    + A+ +A  +  P +  S   S+NV++ F  + A + +
Sbjct: 121 PPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKFVLAKVFD 167

Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 87.1 bits (216), Expect = 1e-21
 Identities = 53/168 (31%), Positives = 90/168 (53%), Gaps = 17/168 (10%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++L+GDS  GK+ LL  FA DS+ ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTA-SFEVDKQRIELSLWDTSGSPY 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  E+  +   N   LLVG K DL TD
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCP-NTPVLLVGCKSDLRTD 120

Query: 123 KKV-----------VSYETAKAFADEIG-IPFMETSAKDS-LNVEQAF 157
                         VS+E  +  A +IG   ++E SAK S  +V   F
Sbjct: 121 LSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVF 168

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 85.2 bits (211), Expect = 1e-21
 Identities = 39/117 (33%), Positives = 60/117 (51%), Gaps = 4/117 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K+++IGD G GKS LL +     +    +   G    + T+E DG T  L IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFN---NVKQWLNEIDRYASENVNKLLVGNKC 118
            +     + + A  I++VYD+TD+ES N    +  WL  + +     +  +LVGNK 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGG-KIPVILVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 87.2 bits (216), Expect = 1e-21
 Identities = 55/163 (33%), Positives = 83/163 (50%), Gaps = 12/163 (7%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GD   GK+ LL  F    +   Y  T+  ++ I  +  DG  V+L +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-IHDIFVDGLAVELSLWDTAGQEE 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD- 122
           F  + S  Y   H I++ + V + +S  NV+ +WL EI  +    V  +LV  KCDL + 
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHC-PGVKLVLVALKCDLREP 119

Query: 123 -------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                     +SYE   A A  I    ++E SAK +  V +AF
Sbjct: 120 RNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAF 162

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 185

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 83.9 bits (207), Expect = 2e-20
 Identities = 53/167 (31%), Positives = 90/167 (53%), Gaps = 16/167 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  +++   YI T+  ++  +T   DG+TV L +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTA-VDGRTVSLNLWDTAGQEE 63

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDL--- 120
           +  + +  Y   +  II + +    S+ NV+ +W  E+  +   NV  LLVG K DL   
Sbjct: 64  YDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRND 122

Query: 121 --TDKKV-------VSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
             T KK+       ++ +   A A +I  + ++E SA +   V++ F
Sbjct: 123 ADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVF 169

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 191

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 82.6 bits (204), Expect = 4e-20
 Identities = 53/167 (31%), Positives = 81/167 (48%), Gaps = 16/167 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y      +I + +    SF NV+ +W  E+  +   N   +LVG K DL D 
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDD 120

Query: 124 KV------------VSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 121 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 83.3 bits (206), Expect = 4e-20
 Identities = 56/196 (28%), Positives = 92/196 (46%), Gaps = 7/196 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           +L+ +G +GVGK+ L+ RF  D++   +  T+  +   +  E  G  V + I DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDK 123
           F  +     +      +VY V D ESF  VK+   EI +    + V  ++VGNK D   +
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAE 119

Query: 124 KVVSYETAKAFAD-EIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR---P 179
           + V    A +  + +    F+E SAKD+ NV + F  +           PA+   R   P
Sbjct: 120 RQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQANLPSWLSPALRRRRESAP 179

Query: 180 PTVQIKGQPVNQKASC 195
             +Q +  P+N+  SC
Sbjct: 180 SEIQRR-PPMNKTNSC 194

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 81.5 bits (202), Expect = 8e-20
 Identities = 37/119 (31%), Positives = 61/119 (51%), Gaps = 10/119 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G  G GK+ +L +      + + I TIG  F + TVE   K VK  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGE-VVTTIPTIG--FNVETVEY--KNVKFTVWDVGGQDK 55

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCDL 120
            R +   YY    G+I V D +D+E     K  L+++   +    +    L++ NK DL
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEEL--KGAPLLILANKQDL 112

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 78.9 bits (194), Expect = 1e-18
 Identities = 53/158 (33%), Positives = 84/158 (53%), Gaps = 16/158 (10%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +A+D++ + Y+ T+  D    +V   GK   L ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + V +  SF NVK +W+ E+  YA  NV  LL+G + DL D
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPYLLIGTQIDLRD 118

Query: 123 ------------KKVVSYETAKAFADEIGIP-FMETSA 147
                       +K ++ E  +  A EIG   ++E SA
Sbjct: 119 DPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSA 156

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 78.6 bits (193), Expect = 2e-18
 Identities = 50/162 (30%), Positives = 86/162 (53%), Gaps = 16/162 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 65

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  EI  +   N   LLVG K DL TD
Sbjct: 66  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTD 124

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLN 152
                      +  VSY+     A +IG   ++E SA  S N
Sbjct: 125 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 166

Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 70.8 bits (174), Expect = 9e-16
 Identities = 30/117 (25%), Positives = 57/117 (48%), Gaps = 4/117 (3%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           KL+L+G  GVGK+ L  +   + +     ST G++    +    + K ++L +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 64  RFRTITSSYYRGAHGI-IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
            +   T  ++  +  + ++V+D+   +  + V  WL +I  +       +LVG   D
Sbjct: 63  IYHA-THQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGG-VSPVILVGTHID 117

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 71.6 bits (175), Expect = 1e-15
 Identities = 53/199 (26%), Positives = 97/199 (48%), Gaps = 17/199 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GD+  GK+ LL  FA D+Y +SY+ T+  ++   + E D   ++L +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTA-SFEIDKHRIELNMWDTSGSSY 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  E   +   N   +LVG K D+ TD
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCP-NAKLVLVGCKLDMRTD 120

Query: 123 KKV-----------VSYETAKAFADEIG-IPFMETSAKDSLN-VEQAFMAMTADIKNRMA 169
                         V++E     A ++G + ++E S++ S N V   F   T     R  
Sbjct: 121 LSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVFHVTTLASVRREH 180

Query: 170 SQPAMNNARPPTVQIKGQP 188
                + +R    +I  QP
Sbjct: 181 PSLKRSTSRRGLKRISQQP 199

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 221

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 69.3 bits (170), Expect = 3e-15
 Identities = 38/117 (32%), Positives = 62/117 (52%), Gaps = 5/117 (4%)

Query: 8   LIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT 67
           L+G    GK+ L+   A   + +  I T+G  F +R V +   T+K  +WD  GQ RFR+
Sbjct: 4   LVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGNVTIK--VWDLGGQPRFRS 59

Query: 68  ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTDK 123
           +   Y RG + I+ V D  D+E     K  L++ +++ + E +  L++GNK DL   
Sbjct: 60  MWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA 116

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 68.9 bits (169), Expect = 6e-15
 Identities = 52/175 (29%), Positives = 78/175 (44%), Gaps = 31/175 (17%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSY-----ISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           +++LIGD GVGKS L++    + + ++        TI  D    T E+    V   I DT
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADV---TPER----VPTTIVDT 56

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKC 118
           + + + R   ++  R A+ I +VY V    +   ++ +WL  I R     V  +LVGNK 
Sbjct: 57  SSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKS 115

Query: 119 DLTDKKVVSYETAKAFADEIGIPFM----------ETSAKDSLNVEQAF-MAMTA 162
           DL D          A  +E  +P M          E SAK  +NV + F  A  A
Sbjct: 116 DLRDGSSQ------AGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKA 164

Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 168

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 69.7 bits (170), Expect = 8e-15
 Identities = 53/189 (28%), Positives = 95/189 (50%), Gaps = 24/189 (12%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++    +E + + V+L +WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSPY 73

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  +++ +D++  E F++ +K+W  EI  Y   +   LL+G K DL TD
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCP-STRILLIGCKTDLRTD 132

Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMTADIKNRMAS 170
                      +  +SYE   A A ++G   ++E SA  S   E++  ++      R AS
Sbjct: 133 LSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTS---EKSIHSIF-----RTAS 184

Query: 171 QPAMNNARP 179
              +N   P
Sbjct: 185 LLCINKLSP 193

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 68.4 bits (167), Expect = 1e-14
 Identities = 45/157 (28%), Positives = 79/157 (50%), Gaps = 16/157 (10%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 61

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +       LLVG + DL D 
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRDD 120

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSA 147
                      +K ++ ET +  A ++  + ++E SA
Sbjct: 121 PSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSA 157

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 68.0 bits (167), Expect = 1e-14
 Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 6/120 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TV    K VK  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGE-IVTTIPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTD 122
             R +  +Y+     +I V D  D++     K+ L+ + +     +   L++ NK DL  
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPG 129

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 66.7 bits (163), Expect = 5e-14
 Identities = 38/120 (31%), Positives = 62/120 (51%), Gaps = 5/120 (4%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQ 62
             ++++G    GK+ +L R   + ++++ + T G +  KI+    + K V    WD  GQ
Sbjct: 4   LHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQ 62

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN--VNKLLVGNKCDL 120
           E+ R +  SY R   GI+ V D  D E     K  L++I ++ SEN  V  L++ NK DL
Sbjct: 63  EKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKF-SENQGVPVLVLANKQDL 121

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 63.2 bits (154), Expect = 2e-12
 Identities = 42/167 (25%), Positives = 76/167 (45%), Gaps = 11/167 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++++++G S VGK+ ++ RF    + + Y  TI  DF  +     G+  +L I DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL---------LV 114
            F  +           I+V+ + ++ESF  V +   +I    S   NK          + 
Sbjct: 60  PFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVIC 119

Query: 115 GNKCDL-TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           GNK D    ++V   E  +    +    + E SAK + N+++ F A+
Sbjct: 120 GNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRAL 166

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 247

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 61.6 bits (150), Expect = 3e-12
 Identities = 49/164 (29%), Positives = 74/164 (45%), Gaps = 19/164 (11%)

Query: 7   LLIGDSGVGKSCLL----LRFADDSY---LDSYISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           L++G    GK+  L     +F+ +           T+G++  I T+E      +L  WD 
Sbjct: 3   LILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLN--IGTIEVGK--ARLMFWDL 58

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKC 118
            GQE  R++   YY  +HG+I V D TD+E FN  K    ++    + E V  L++ NK 
Sbjct: 59  GGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQ 118

Query: 119 DLTDKKVVSYETAKAFAD---EIG---IPFMETSAKDSLNVEQA 156
           DL D   V+ E  + F D    IG         SA +   VE+ 
Sbjct: 119 DLPDALSVA-EIKEVFDDCIALIGRRDCLVQPVSALEGEGVEEG 161

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development. Length = 168

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 61.2 bits (149), Expect = 5e-12
 Identities = 37/126 (29%), Positives = 64/126 (50%), Gaps = 18/126 (14%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYIS---TIGVDFKIRTVEQ-DGKTVKLQIWDT 59
           +K++++G    GK+ +L +F     L   +    TIG +     VE+   K ++  +WD 
Sbjct: 16  YKVIIVGLDNAGKTTILYQFL----LGEVVHTSPTIGSN-----VEEIVYKNIRFLMWDI 66

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGN 116
            GQE  R+  ++YY     +I+V D TD+E     K+ L ++   A E++ K   L++ N
Sbjct: 67  GGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKM--LAHEDLRKAVLLVLAN 124

Query: 117 KCDLTD 122
           K DL  
Sbjct: 125 KQDLKG 130

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 60.7 bits (147), Expect = 7e-12
 Identities = 33/123 (26%), Positives = 59/123 (47%), Gaps = 14/123 (11%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTI-GVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++L++G    GK+ +L +      L   ++TI  + F + TV    K +   +WD  GQ+
Sbjct: 15  RILMVGLDAAGKTTILYKLK----LGESVTTIPTIGFNVETVTY--KNISFTVWDVGGQD 68

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCD 119
           + R +   YY    G+I V D  D++  +  ++   E+ R  +E    +   L+  NK D
Sbjct: 69  KIRPLWRHYYTNTQGLIFVVDSNDRDRIDEARE---ELHRMLNEDELRDAVILVFANKQD 125

Query: 120 LTD 122
           L D
Sbjct: 126 LPD 128

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 60.4 bits (147), Expect = 1e-11
 Identities = 40/144 (27%), Positives = 64/144 (44%), Gaps = 15/144 (10%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQ--DGKTVKLQIWDTAGQ 62
           K++ +G    GK+ LL    DD  L  ++ T+       T E+   G  VK   +D  G 
Sbjct: 21  KIVFLGLDNAGKTTLLHMLKDDR-LAQHVPTLHP-----TSEELTIGN-VKFTTFDLGGH 73

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLT 121
           E+ R +   Y+    GI+ + D  D E F   K+ L+ + +     NV  L++GNK D  
Sbjct: 74  EQARRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDK- 132

Query: 122 DKKVVSYETAKAFADEIGIPFMET 145
               VS E  +   + +G+    T
Sbjct: 133 -PGAVSEEELR---EALGLYGTTT 152

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 59.9 bits (145), Expect = 2e-11
 Identities = 39/132 (29%), Positives = 67/132 (50%), Gaps = 12/132 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +      + + I TIG  F + TVE   K +K  +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEVVTT-IPTIG--FNVETVEY--KNLKFTMWDVGGQDK 73

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCDL 120
            R +   YY+  +G+I V D  D+E   + ++   E++R  SE    +   L+  NK DL
Sbjct: 74  LRPLWRHYYQNTNGLIFVVDSNDRERIGDARE---ELERMLSEDELRDAVLLVFANKQDL 130

Query: 121 TDKKVVSYETAK 132
            +    +  T K
Sbjct: 131 PNAMSTTEVTEK 142

Length = 182

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 59.9 bits (145), Expect = 2e-11
 Identities = 40/143 (27%), Positives = 69/143 (48%), Gaps = 28/143 (19%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG--VDFKIRTVEQDG---KTVKLQIWDT 59
           K+L++GDSGVGKS L+     +  L +   T+G  VD +  T  +     KT  +++WD 
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 60  AGQ----ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-------------- 101
            G     E  ++  + +Y   +GII V+D+T+++S  N+ +W  E               
Sbjct: 62  GGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVTN 121

Query: 102 -----DRYASENVNKLLVGNKCD 119
                +++A   V  L++G K D
Sbjct: 122 GDYDSEQFAGNPVPLLVIGTKLD 144

RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown. Length = 204

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 58.6 bits (142), Expect = 5e-11
 Identities = 41/122 (33%), Positives = 63/122 (51%), Gaps = 12/122 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTI-GVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ+
Sbjct: 11  RILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQD 64

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLV-GNKCDL 120
           + R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  LLV  NK DL
Sbjct: 65  KIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDAL--LLVFANKQDL 122

Query: 121 TD 122
            D
Sbjct: 123 PD 124

Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 57.3 bits (138), Expect = 2e-10
 Identities = 53/196 (27%), Positives = 81/196 (41%), Gaps = 50/196 (25%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYL----------------DSYISTIGVDFKIRTVE 46
             K +++GD+ VGK+ L+   A +  L                D Y     V  + R V 
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDV- 60

Query: 47  QDGKTVKLQIWDTAG-QERFRTITSSYYRGAHG----IIIVYDVTDQESFNNVKQ-WLNE 100
            DG +V L++WDT G  ++ R       R A+G    +++ + +    S  NVK  W  E
Sbjct: 61  VDGVSVSLRLWDTFGDHDKDR-------RFAYGRSDVVLLCFSIASPNSLRNVKTMWYPE 113

Query: 101 IDRYASENVNKLLVGNKCDL-------------------TDKKVVSYETAKAFADEIGIP 141
           I  +    V  +LVG K DL                    +  ++  ET +A A E+GIP
Sbjct: 114 IRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIP 172

Query: 142 FMETSAKDSLNVEQAF 157
           + ETS      V+  F
Sbjct: 173 YYETSVVTQFGVKDVF 188

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature. Length = 195

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 55.5 bits (134), Expect = 5e-10
 Identities = 36/132 (27%), Positives = 63/132 (47%), Gaps = 12/132 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNISFTVWDVGGQDK 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCDL 120
            R +   Y++   G+I V D  D+E     ++   E+ R  +E    +   L+  NK DL
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERIGEARE---ELQRMLNEDELRDAVLLVFANKQDL 113

Query: 121 TDKKVVSYETAK 132
            +    +  T K
Sbjct: 114 PNAMSAAEVTDK 125

The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 54.0 bits (130), Expect = 2e-09
 Identities = 33/119 (27%), Positives = 59/119 (49%), Gaps = 5/119 (4%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++LL+G    GKS LL +      + + I T+G  F +  ++ +   + L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVG--FNVEMLQLEKH-LSLTVWDVGGQEK 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
            RT+   Y     G++ V D +D+   +  ++ L  I +    + V  +L+ NK DL  
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG 115

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 55.3 bits (133), Expect = 3e-09
 Identities = 37/144 (25%), Positives = 70/144 (48%), Gaps = 25/144 (17%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG--VDFKIRTVEQDGKTVK--------- 53
           ++L++GDSGVGKS L+      S +     TIG  V  K  T    G +           
Sbjct: 23  RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERD 82

Query: 54  --LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN--- 108
             +++WD +G ER++   S +Y   +G+I V+D++ + +  ++++W +E+    + +   
Sbjct: 83  FFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPL 142

Query: 109 ---------VNKLLVGNKCDLTDK 123
                    V  +++GNK D+  K
Sbjct: 143 GSGGPGGLPVPYIVIGNKADIAPK 166

Length = 334

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 53.4 bits (128), Expect = 4e-09
 Identities = 35/132 (26%), Positives = 64/132 (48%), Gaps = 12/132 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQDK 73

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCDL 120
            R +   Y++   G+I V D  D++     +   +E+ R  +E+  +    L+  NK DL
Sbjct: 74  IRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR---DELHRMLNEDELRDAVLLVFANKQDL 130

Query: 121 TDKKVVSYETAK 132
            +    +  T K
Sbjct: 131 PNAMNAAEITDK 142

Length = 181

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 53.2 bits (128), Expect = 4e-09
 Identities = 37/121 (30%), Positives = 56/121 (46%), Gaps = 10/121 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG--VDFKIRTVEQDGKTVKLQIWDTAGQ 62
           ++LL+G    GK+ +L + A +      IS I     F I+ V+ DG   KL +WD  GQ
Sbjct: 17  RILLLGLDNAGKTTILKQLASED-----ISHITPTQGFNIKNVQADGF--KLNVWDIGGQ 69

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLT 121
            + R    +Y+     +I V D  D++ F    Q L E+ +      V  L+  NK DL 
Sbjct: 70  RKIRPYWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLL 129

Query: 122 D 122
            
Sbjct: 130 T 130

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 52.6 bits (126), Expect = 1e-08
 Identities = 38/133 (28%), Positives = 60/133 (45%), Gaps = 21/133 (15%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWD----- 58
            ++ ++G  GVGK+ ++ +F    + + YI T         V   G+   L I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 59  ----TAGQE----RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK---QWLNEIDRYASE 107
               TAGQE    RFR +     R +   I+VYD+   +SF+ VK   Q + E     ++
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 108 NVNKLLVGNKCDL 120
               ++VGNK D 
Sbjct: 116 EPPIVVVGNKRDQ 128

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 51.2 bits (123), Expect = 2e-08
 Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 14/122 (11%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG--VDFKIRTVEQDGKTVKLQIWDTAG 61
            ++L++G    GK+ +L +F  +      ISTI   + F I+T+E +G   KL IWD  G
Sbjct: 15  MRILMLGLDNAGKTTILKKFNGED-----ISTISPTLGFNIKTLEYNG--YKLNIWDVGG 67

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKC 118
           Q+  R+   +Y+     +I V D +D+    + K+ L ++   +R A   +  L+  NK 
Sbjct: 68  QKSLRSYWRNYFESTDALIWVVDSSDRARLEDCKRELQKLLVEERLAGATL--LIFANKQ 125

Query: 119 DL 120
           DL
Sbjct: 126 DL 127

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis. Length = 173

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 49.6 bits (118), Expect = 7e-08
 Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 5/80 (6%)

Query: 5  KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
          +++ +G  G GK+ +L +   D ++   I TIG  F + TVE   K +K  IWD  G+ +
Sbjct: 1  RVVTLGLDGAGKTTILFKLKQDEFMQP-IPTIG--FNVETVEY--KNLKFTIWDVGGKHK 55

Query: 65 FRTITSSYYRGAHGIIIVYD 84
           R +   YY     ++ V D
Sbjct: 56 LRPLWKHYYLNTQAVVFVID 75

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 47.5 bits (113), Expect = 5e-07
 Identities = 36/158 (22%), Positives = 70/158 (44%), Gaps = 20/158 (12%)

Query: 5   KLLLIGDSGVGKSCLL------------LRFADDSYLDSYISTIGVDFKIRTVEQDGKTV 52
           K+++IG  G GK+  +               +  S      +T+ +DF   ++E D  T 
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFG--SIELDEDT- 68

Query: 53  KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL 112
            + ++ T GQERF+ +     RGA G I++ D +   +F+  +  + +    +   +  +
Sbjct: 69  GVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEE--IIDFLT-SRNPIPVV 125

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEI-GIPFMETSAKD 149
           +  NK DL D      +  +A   E+  +P +E  A +
Sbjct: 126 VAINKQDLFDALPPE-KIREALKLELLSVPVIEIDATE 162

Length = 187

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 45.9 bits (109), Expect = 2e-06
 Identities = 32/94 (34%), Positives = 45/94 (47%), Gaps = 5/94 (5%)

Query: 5  KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
          ++L++G  G GK+ +L R      + + I TIG  F + TV    K +K Q+WD  GQ  
Sbjct: 1  RILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTY--KNLKFQVWDLGGQTS 55

Query: 65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL 98
           R     YY     II V D TD++     K  L
Sbjct: 56 IRPYWRCYYSNTDAIIYVVDSTDRDRLGISKSEL 89

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 45.1 bits (107), Expect = 3e-06
 Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 7/117 (5%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           +L++G  G GK+ LL   + +  L+S + T G +       QD     L+I    G +  
Sbjct: 2   ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSV-AIPTQDAIMELLEI---GGSQNL 57

Query: 66  RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLT 121
           R     Y  G+ G+I V D  D E     +Q L++ +      ++  +++ NK DL 
Sbjct: 58  RKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQ--HPPDLPLVVLANKQDLP 112

Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date. Length = 164

>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 40/151 (26%), Positives = 62/151 (41%), Gaps = 25/151 (16%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           +F   ++G  G GKS LL  F   S+  ++Y  TI   + + TVE  G+  K  I    G
Sbjct: 4   VFLCFVLGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQE-KYLILREVG 62

Query: 62  QERFRTITSSYYRGAHGIII-VYDVTDQESFNNVKQWLNEIDRYASENVNK--------- 111
           ++    + +     A  +   VYD +D  SF+           Y +E   K         
Sbjct: 63  EDEEAILLNDAELAACDVACLVYDSSDPNSFS-----------YCAEVYKKYFMLGEIPC 111

Query: 112 LLVGNKCDLTDKKVVSYE-TAKAFADEIGIP 141
           L V  K DL D++    E     F  ++G+P
Sbjct: 112 LFVAAKADL-DEQQQRAEVQPDEFCRKLGLP 141

Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 180

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 10/124 (8%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYIS-TIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           +L++G    GK+ ++ +    +     I  T+G  F + + ++    +    +D +GQ +
Sbjct: 2   ILVLGLDNSGKTTIINQLKPSNAQSQNIVPTVG--FNVESFKKGN--LSFTAFDMSGQGK 57

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK----QWLNEIDRYASENVNKLLVGNKCDL 120
           +R +   YY+   GII V D +D+      K      LN  D      +  L   NK DL
Sbjct: 58  YRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPD-IKHRRIPILFYANKMDL 116

Query: 121 TDKK 124
            D  
Sbjct: 117 PDAL 120

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 43.5 bits (103), Expect = 2e-05
 Identities = 31/124 (25%), Positives = 48/124 (38%), Gaps = 9/124 (7%)

Query: 7   LLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR 66
           LL+G S  GK+ L  +        +  S               K  KL + D  G E+ R
Sbjct: 4   LLLGPSDSGKTALFTKLTTGKVRSTVTSIEPNVASF--YSNSSKGKKLTLVDVPGHEKLR 61

Query: 67  TITSSYYRGAH-GIIIVYD-VTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCDL 120
                Y + +   I+ V D  T Q++  +V ++L +I     E +      L+  NK DL
Sbjct: 62  DKLLEYLKASLKAIVFVVDSATFQKNIRDVAEFLYDI-LTDLEKIKNKIPILIACNKQDL 120

Query: 121 TDKK 124
              K
Sbjct: 121 FTAK 124

Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this type of cancer. Length = 202

>gnl|CDD|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 40.6 bits (95), Expect = 1e-04
 Identities = 41/157 (26%), Positives = 72/157 (45%), Gaps = 11/157 (7%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL ++G+   GKS L+ R+   SY+    S  G  FK + V  DG++  L I D  G   
Sbjct: 2   KLGIVGNLRSGKSALVHRYLTGSYVQLE-SPEGGRFK-KEVLVDGQSHLLLIRDEGGA-- 57

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDK 123
                + +      +I V+ + D+ SF  V +  +++  Y     +  +LVG +  ++  
Sbjct: 58  ---PDAQFAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILVGTQDAISAS 114

Query: 124 --KVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
             +V+    A+    ++    + ET A   LNVE+ F
Sbjct: 115 NPRVIDDARARQLCADMKRCSYYETCATYGLNVERVF 151

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only]

 Score = 39.9 bits (94), Expect = 4e-04
 Identities = 41/171 (23%), Positives = 60/171 (35%), Gaps = 41/171 (23%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYIST---------IGVDFKIRTVEQDGKTVKL 54
            K+++IG   VGKS LL         D  I T         I  D  +     +G  V+L
Sbjct: 218 LKVVIIGRPNVGKSSLLNALLGR---DRAIVTDIAGTTRDVIEEDINL-----NGIPVRL 269

Query: 55  QIWDTAGQ-------ERF---RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY 104
              DTAG        ER    R   +     A  ++ V D +        K+ L  I+  
Sbjct: 270 V--DTAGIRETDDVVERIGIERAKKAI--EEADLVLFVLDASQPLD----KEDLALIEL- 320

Query: 105 ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ 155
             +    ++V NK DL  K  +  E         G   +  SAK    ++ 
Sbjct: 321 LPKKKPIIVVLNKADLVSKIELESEKLAN-----GDAIISISAKTGEGLDA 366

Length = 454

>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction only]

 Score = 39.3 bits (92), Expect = 6e-04
 Identities = 27/105 (25%), Positives = 36/105 (34%), Gaps = 13/105 (12%)

Query: 79  IIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI 138
           ++ V D  D     N      E++R   E   KLLV NK DL  K+V   +  K F  E 
Sbjct: 38  VVEVVDARDPLGTRNP-----ELERIVKEKP-KLLVLNKADLAPKEVTK-KWKKYFKKEE 90

Query: 139 GIPFMETSAKDSLNVE----QAFMAMTADIKN--RMASQPAMNNA 177
           GI  +  SAK     +             IK   +          
Sbjct: 91  GIKPIFVSAKSRQGGKKIRKALEKLSEEKIKRLKKKGLLKRKIRV 135

Length = 322

>gnl|CDD|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13

 Score = 37.8 bits (88), Expect = 0.001
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 6/118 (5%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           LL +G    GK+ L+     +        T+G  F    +  D    ++ I+D  G   F
Sbjct: 2   LLTVGLDNAGKTTLVSALQGEIPKK-VAPTVG--FTPTKLRLD--KYEVCIFDLGGGANF 56

Query: 66  RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLV-GNKCDLTD 122
           R I  +YY  AHG++ V D +D +    VK+ L E+ ++   +   +LV  NK D  +
Sbjct: 57  RGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKN 114

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene. Length = 167

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 27/108 (25%), Positives = 47/108 (43%), Gaps = 18/108 (16%)

Query: 5   KLLLIGDSGVGKSCLLLR-FADDSYLDS-YI-STIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           K+LL+G  G GKS +    F++ S  D+  + +TI V+     V   G  + L +WD  G
Sbjct: 1   KVLLMGLRGSGKSSMRSIIFSNYSPRDTLRLGATIDVE--QSHVRFLGN-LTLNLWDCPG 57

Query: 62  QERFRTITSSY-----YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY 104
           Q+ F     +      +     +I V+DV  +E       +  ++   
Sbjct: 58  QDDFMENYLTRQKEHIFSNVGVLIYVFDVESRE-------YEEDLATL 98

GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B. Length = 230

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
PLN03118	211	Rab family protein; Provisional	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	100.0
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.98
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.98
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.98
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.98
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.97
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.96
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.96
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
PTZ00099	176	rab6; Provisional	99.96
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.96
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.96
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.96
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.95
PRK12299	335	obgE GTPase CgtA; Reviewed	99.95
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.95
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.95
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.94
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.94
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.94
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.93
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.93
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.93
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.93
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.93
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.93
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.93
PRK03003	472	GTP-binding protein Der; Reviewed	99.92
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.92
PRK04213	201	GTP-binding protein; Provisional	99.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.92
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.92
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.92
PRK03003	472	GTP-binding protein Der; Reviewed	99.91
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.91
PRK12296	500	obgE GTPase CgtA; Reviewed	99.91
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.91
PRK12297	424	obgE GTPase CgtA; Reviewed	99.91
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.91
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.91
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.91
cd00881	189	GTP_translation_factor GTP translation factor fami	99.91
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.91
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.91
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.9
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.9
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.9
PRK11058	426	GTPase HflX; Provisional	99.9
PRK15494	339	era GTPase Era; Provisional	99.9
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.9
PRK05306	787	infB translation initiation factor IF-2; Validated	99.9
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.9
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.9
PRK00093	435	GTP-binding protein Der; Reviewed	99.9
PRK12298	390	obgE GTPase CgtA; Reviewed	99.9
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.9
CHL00189	742	infB translation initiation factor 2; Provisional	99.89
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.89
COG1160	444	Predicted GTPases [General function prediction onl	99.89
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.89
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.89
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.89
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.89
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.89
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
PRK00089	292	era GTPase Era; Reviewed	99.88
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.88
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.88
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.88
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.88
PRK00093	435	GTP-binding protein Der; Reviewed	99.87
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.87
PRK05433	600	GTP-binding protein LepA; Provisional	99.87
COG1159	298	Era GTPase [General function prediction only]	99.87
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.87
COG1160	444	Predicted GTPases [General function prediction onl	99.87
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.87
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.86
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.86
KOG1673	205	consensus Ras GTPases [General function prediction	99.86
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.86
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.85
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.85
COG2229	187	Predicted GTPase [General function prediction only	99.85
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.85
COG0486	454	ThdF Predicted GTPase [General function prediction	99.84
PRK12317	425	elongation factor 1-alpha; Reviewed	99.84
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.84
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.84
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.83
PRK04004	586	translation initiation factor IF-2; Validated	99.83
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.83
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.83
PRK10218	607	GTP-binding protein; Provisional	99.83
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.83
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.83
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.82
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.82
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.81
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.81
KOG1145	683	consensus Mitochondrial translation initiation fac	99.8
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.8
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.8
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.79
PRK12736	394	elongation factor Tu; Reviewed	99.79
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.79
COG0218	200	Predicted GTPase [General function prediction only	99.78
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.78
COG2262	411	HflX GTPases [General function prediction only]	99.78
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.78
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.77
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.77
PRK12735	396	elongation factor Tu; Reviewed	99.77
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.77
CHL00071	409	tufA elongation factor Tu	99.77
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.76
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.76
COG1163	365	DRG Predicted GTPase [General function prediction	99.76
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.75
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.75
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.75
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.75
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.74
PLN00043	447	elongation factor 1-alpha; Provisional	99.74
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.74
COG1084	346	Predicted GTPase [General function prediction only	99.74
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.74
PLN03126	478	Elongation factor Tu; Provisional	99.74
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.74
COG0536	369	Obg Predicted GTPase [General function prediction	99.73
PRK00049	396	elongation factor Tu; Reviewed	99.73
PLN03127	447	Elongation factor Tu; Provisional	99.73
COG3596	296	Predicted GTPase [General function prediction only	99.73
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.73
PTZ00141	446	elongation factor 1- alpha; Provisional	99.73
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.72
PRK13351	687	elongation factor G; Reviewed	99.71
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.7
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.7
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.69
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.69
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.69
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.69
PRK12739	691	elongation factor G; Reviewed	99.69
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.68
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.67
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.64
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.62
KOG0090	238	consensus Signal recognition particle receptor, be	99.62
PRK09602	396	translation-associated GTPase; Reviewed	99.62
PRK12740	668	elongation factor G; Reviewed	99.61
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.61
PRK09866	741	hypothetical protein; Provisional	99.61
PRK14845	1049	translation initiation factor IF-2; Provisional	99.58
PRK00007	693	elongation factor G; Reviewed	99.58
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.56
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.54
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.53
PTZ00258	390	GTP-binding protein; Provisional	99.53
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.52
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.51
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.51
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.5
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.5
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.5
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.5
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.49
PRK13768	253	GTPase; Provisional	99.49
PRK09601	364	GTP-binding protein YchF; Reviewed	99.46
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.46
PRK07560	731	elongation factor EF-2; Reviewed	99.46
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.45
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.45
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.45
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.45
PTZ00416	836	elongation factor 2; Provisional	99.44
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.44
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.41
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.41
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.41
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.4
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.4
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.39
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.37
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.36
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.36
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.36
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.34
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.34
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.32
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.32
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.31
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.31
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.31
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.3
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.3
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.29
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.26
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.25
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.25
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.22
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.22
KOG0410	410	consensus Predicted GTP binding protein [General f	99.21
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.15
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.12
PRK12289	352	GTPase RsgA; Reviewed	99.11
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.1
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.07
PRK12288	347	GTPase RsgA; Reviewed	99.06
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.05
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.05
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.04
KOG3887	347	consensus Predicted small GTPase involved in nucle	99.03
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.02
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	99.01
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.99
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.99
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.99
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.98
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.98
PRK00098	298	GTPase RsgA; Reviewed	98.95
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.94
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.92
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.91
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.9
KOG2486	320	consensus Predicted GTPase [General function predi	98.9
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.9
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.86
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.85
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.85
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.84
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.79
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.79
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.77
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.75
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.74
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.73
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.73
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.73
KOG0460	449	consensus Mitochondrial translation elongation fac	98.71
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.71
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.7
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.7
COG1161	322	Predicted GTPases [General function prediction onl	98.69
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.67
PRK13796	365	GTPase YqeH; Provisional	98.66
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.62
KOG1143	591	consensus Predicted translation elongation factor	98.61
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.59
PRK12288	347	GTPase RsgA; Reviewed	98.59
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.57
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.55
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.52
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.51
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.51
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.5
PRK12289	352	GTPase RsgA; Reviewed	98.46
COG1162	301	Predicted GTPases [General function prediction onl	98.42
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.42
PRK10416	318	signal recognition particle-docking protein FtsY;	98.42
PRK01889	356	GTPase RsgA; Reviewed	98.42
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.41
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.4
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	98.39
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.37
PRK13796	365	GTPase YqeH; Provisional	98.37
cd03112	158	CobW_like The function of this protein family is u	98.36
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.35
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.34
COG3523	1188	IcmF Type VI protein secretion system component Va	98.31
PRK13695	174	putative NTPase; Provisional	98.28
PRK14974	336	cell division protein FtsY; Provisional	98.28
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.26
PRK00098	298	GTPase RsgA; Reviewed	98.25
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.22
COG1162	301	Predicted GTPases [General function prediction onl	98.17
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	98.16
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.14
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.08
KOG1534	273	consensus Putative transcription factor FET5 [Tran	98.07
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	98.07
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.05
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.05
KOG2484	435	consensus GTPase [General function prediction only	98.04
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.03
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.96
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.96
cd03114	148	ArgK-like The function of this protein family is u	97.95
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.93
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.92
COG0523	323	Putative GTPases (G3E family) [General function pr	97.92
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.88
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.87
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.87
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.85
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.85
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.84
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.82
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.8
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.79
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.77
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.74
cd03111	106	CpaE_like This protein family consists of proteins	97.72
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.72
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.69
TIGR00959	428	ffh signal recognition particle protein. This mode	97.67
KOG1533	290	consensus Predicted GTPase [General function predi	97.67
PRK10867	433	signal recognition particle protein; Provisional	97.66
PRK08118	167	topology modulation protein; Reviewed	97.66
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.65
PRK07261	171	topology modulation protein; Provisional	97.64
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.64
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.59
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.58
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.57
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.57
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.55
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.51
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.51
cd02036	179	MinD Bacterial cell division requires the formatio	97.45
PRK14737	186	gmk guanylate kinase; Provisional	97.44
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.44
cd03110	179	Fer4_NifH_child This protein family's function is	97.43
PRK06217	183	hypothetical protein; Validated	97.42
PRK03839	180	putative kinase; Provisional	97.37
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.37
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.37
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.36
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.35
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.33
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.33
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.31
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.31
PF00004	132	AAA: ATPase family associated with various cellula	97.27
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.26
COG1161	322	Predicted GTPases [General function prediction onl	97.26
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.26
PRK14530	215	adenylate kinase; Provisional	97.25
PRK01889	356	GTPase RsgA; Reviewed	97.25
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.25
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.24
PRK14532	188	adenylate kinase; Provisional	97.23
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.22
PRK14531	183	adenylate kinase; Provisional	97.21
PRK14738	206	gmk guanylate kinase; Provisional	97.2
PTZ00088	229	adenylate kinase 1; Provisional	97.2
smart00382	148	AAA ATPases associated with a variety of cellular	97.19
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.19
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.17
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.17
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.16
PRK13949	169	shikimate kinase; Provisional	97.16
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.15
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.15
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.14
PRK02496	184	adk adenylate kinase; Provisional	97.13
PRK00625	173	shikimate kinase; Provisional	97.13
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.12
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.11
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.09
PRK08233	182	hypothetical protein; Provisional	97.08
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.08
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.08
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.07
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.07
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.06
PRK06547	172	hypothetical protein; Provisional	97.06
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.06
PRK05480	209	uridine/cytidine kinase; Provisional	97.05
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.05
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.05
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.05
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.04
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.03
PRK00279	215	adk adenylate kinase; Reviewed	97.02
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.01
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.01
PRK08099	399	bifunctional DNA-binding transcriptional repressor	97.0
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	97.0
PRK14529	223	adenylate kinase; Provisional	96.96
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.96
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.96
PRK00300	205	gmk guanylate kinase; Provisional	96.95

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.2e-45  Score=253.14  Aligned_cols=197  Identities=72%  Similarity=1.165  Sum_probs=181.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +|.+||+|+|.+|||||+|+.||....+.+.+..|+++++..+++.+++..+++++|||+|+++|..+...|+++++++|
T Consensus         7 dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii   86 (205)
T KOG0084|consen    7 DYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGII   86 (205)
T ss_pred             ceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEE
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc-EEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||+++.+||..+..|+.++.++...++|.++|+||+|+.+.+.++.++++.++..++++ ++++||+++.|++++|..
T Consensus        87 ~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~  166 (205)
T KOG0084|consen   87 FVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLT  166 (205)
T ss_pred             EEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999998 999999999999999999


Q ss_pred             HHHHHHHhhhcCcCCCCCCCCccccCCCCC-CCCCCccC
Q 043946          160 MTADIKNRMASQPAMNNARPPTVQIKGQPV-NQKASCCS  197 (198)
Q Consensus       160 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~cc~  197 (198)
                      |...+.++.......+.....+.++.+.+. ...++||+
T Consensus       167 la~~lk~~~~~~~~~~~~~~~~~ql~~~p~~~~~~~~C~  205 (205)
T KOG0084|consen  167 LAKELKQRKGLHVKWSTASLESVQLKGTPVKKSNGGCCE  205 (205)
T ss_pred             HHHHHHHhcccCCCCCcCCCCceeeCCCCcccccCCCCC
Confidence            999999988877766654555555666444 34445775

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.7e-42  Score=236.82  Aligned_cols=196  Identities=42%  Similarity=0.735  Sum_probs=178.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+|++++|..+||||||+-|+..+++.+...+|++.-+....+.++...+++.||||+|+++|..+-++|+++++++|+
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAiv   83 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIV   83 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEE
Confidence            46899999999999999999999999998889999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||+++.+||..+..|+..+.+...+++-+.+|+||+|+.+.+++..++++.++...+..|+++||+++.|++++|..|.
T Consensus        84 vYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia  163 (200)
T KOG0092|consen   84 VYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIA  163 (200)
T ss_pred             EEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHH
Confidence            99999999999999999999998888888889999999999899999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCcCCCCCCCCccccCCC-CCCCCCCccC
Q 043946          162 ADIKNRMASQPAMNNARPPTVQIKGQ-PVNQKASCCS  197 (198)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~cc~  197 (198)
                      +.+.....+.......++.+..+... ++...++|||
T Consensus       164 ~~lp~~~~~~~~~~~~~~~g~~l~~~~~~~~~~~~C~  200 (200)
T KOG0092|consen  164 EKLPCSDPQERQGLPNRRQGVDLNSNQEPARPSGCCA  200 (200)
T ss_pred             HhccCccccccccccccccceecccCCCCcCcCCcCC
Confidence            99987666655443444455555544 6777888997

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.6e-41  Score=232.68  Aligned_cols=171  Identities=63%  Similarity=1.089  Sum_probs=165.4

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |+.+||+++|.++||||+++.+|..+.+...+..+.++++..+++..++..+++++|||+|++.+..+...|++.+++++
T Consensus        10 d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~   89 (207)
T KOG0078|consen   10 DYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIL   89 (207)
T ss_pred             ceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeE
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||+++..||.++..|+..+.++...++|.++|+||+|+...+.++.+..++++..+|+.|+|+||++|.||+|+|..|
T Consensus        90 LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~L  169 (207)
T KOG0078|consen   90 LVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSL  169 (207)
T ss_pred             EEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.++....
T Consensus       170 a~~i~~k~~~~  180 (207)
T KOG0078|consen  170 ARDILQKLEDA  180 (207)
T ss_pred             HHHHHhhcchh
Confidence            99999866654

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.2e-40  Score=226.62  Aligned_cols=195  Identities=39%  Similarity=0.674  Sum_probs=168.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+|++++|..+|||||||.|+....+...|.+|++.++...++.+.+..+++++|||+|+++|..+...|++++.++|+|
T Consensus        22 ~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviV  101 (221)
T KOG0094|consen   22 KYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIV  101 (221)
T ss_pred             EEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASE-NVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||+++.+||.+...|++.+...... +.-+++|+||.||.+.+++..++.+..++++++.|+++||+.|.||.++|..|.
T Consensus       102 yDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIa  181 (221)
T KOG0094|consen  102 YDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIA  181 (221)
T ss_pred             EeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHH
Confidence            9999999999999999999888776 477888999999999999999999999999999999999999999999999977


Q ss_pred             HHHHHhhhcCcCCCCCCCCccccCCCCCCCC----CCccC
Q 043946          162 ADIKNRMASQPAMNNARPPTVQIKGQPVNQK----ASCCS  197 (198)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~cc~  197 (198)
                      ..+.................+.+++.++..+    .+|||
T Consensus       182 a~l~~~~~~~~~~~~~~~~~i~~k~~~~~~~~s~~~~~~C  221 (221)
T KOG0094|consen  182 AALPGMEVLEILSKQESMVDINLKGSPNEQQASKPGLCSC  221 (221)
T ss_pred             HhccCccccccccccccceeEEccCCCCcccccCCCCCCC
Confidence            7776654422222222233344443333333    23888

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.8e-40  Score=219.20  Aligned_cols=169  Identities=50%  Similarity=0.824  Sum_probs=158.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++++||+++|.+|||||||+.+|....+.+....++++++..+.+.+++..+++.||||+|+++|..+...|++.+.++|
T Consensus         9 ~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiI   88 (209)
T KOG0080|consen    9 DTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGII   88 (209)
T ss_pred             ceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeE
Confidence            35799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||++.+++|..+..|+.++..+.. +++-.++|+||+|..+.+.++.++..++++++++.|+++||++.+|++..|+.
T Consensus        89 lVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~Fee  168 (209)
T KOG0080|consen   89 LVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEE  168 (209)
T ss_pred             EEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHH
Confidence            99999999999999999999988865 45667889999999888899999999999999999999999999999999999


Q ss_pred             HHHHHHHhhh
Q 043946          160 MTADIKNRMA  169 (198)
Q Consensus       160 l~~~~~~~~~  169 (198)
                      |...+.+-..
T Consensus       169 lveKIi~tp~  178 (209)
T KOG0080|consen  169 LVEKIIETPS  178 (209)
T ss_pred             HHHHHhcCcc
Confidence            9999987444

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.7e-39  Score=219.60  Aligned_cols=170  Identities=52%  Similarity=0.881  Sum_probs=162.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      .+.+|++++|..|||||+|+.++....+.+.+..|++.++..+.+++++..+++++|||+|++.+.+....|++.+.++|
T Consensus         4 ~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Gal   83 (216)
T KOG0098|consen    4 AYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGAL   83 (216)
T ss_pred             cceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceE
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++++|.++..|+..++.+...++.+++++||+|+...+.++.++.+.++++++..++++||+++.|++|+|...
T Consensus        84 LVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nt  163 (216)
T KOG0098|consen   84 LVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINT  163 (216)
T ss_pred             EEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHH
Confidence            99999999999999999999999988899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      ...+......
T Consensus       164 a~~Iy~~~q~  173 (216)
T KOG0098|consen  164 AKEIYRKIQD  173 (216)
T ss_pred             HHHHHHHHHh
Confidence            8888766554

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=1.3e-38  Score=229.13  Aligned_cols=165  Identities=50%  Similarity=0.919  Sum_probs=151.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +.|+++|..|||||||+++|..+.+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            47999999999999999999999998888899888888888899998899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |++++++|..+..|+..+......+.|+++|+||+|+.+.+.+..++..++++.+ ++.|+++||++|.||+++|++|.+
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~  160 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVD  160 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999999887776667999999999999877778888888888875 789999999999999999999999


Q ss_pred             HHHHhh
Q 043946          163 DIKNRM  168 (198)
Q Consensus       163 ~~~~~~  168 (198)
                      .+.+..
T Consensus       161 ~~~~~~  166 (202)
T cd04120         161 DILKKM  166 (202)
T ss_pred             HHHHhC
Confidence            887653

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=4.9e-38  Score=229.18  Aligned_cols=198  Identities=46%  Similarity=0.792  Sum_probs=166.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.++++|
T Consensus        10 ~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~i   89 (216)
T PLN03110         10 DYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   89 (216)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEE
Confidence            36799999999999999999999998887778888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        90 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l  169 (216)
T PLN03110         90 LVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTI  169 (216)
T ss_pred             EEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999888766689999999999998777777888888988889999999999999999999999


Q ss_pred             HHHHHHhhhcCcCCCCC---------CCCccccCCCCCCCCCCccCC
Q 043946          161 TADIKNRMASQPAMNNA---------RPPTVQIKGQPVNQKASCCST  198 (198)
Q Consensus       161 ~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~cc~~  198 (198)
                      .+.+.+...........         .-..+.+.++...++++||+|
T Consensus       170 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  216 (216)
T PLN03110        170 LLEIYHIISKKALAAQEAAANSGLPGQGTTINVADTSGNNKRGCCST  216 (216)
T ss_pred             HHHHHHHhhccccccccCcccccCcCcCCcccccCccCCCCCCCcCC
Confidence            99987744432211110         111112233456677889865

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=5.8e-39  Score=217.57  Aligned_cols=193  Identities=36%  Similarity=0.651  Sum_probs=169.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|+|||||.+++++.++...+..+++.++-.+.+.+++..+.++||||+|+++|..+...+++.+|.+++|
T Consensus         9 lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlv   88 (210)
T KOG0394|consen    9 LLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLV   88 (210)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEE
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCC--CCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTD--KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQ  155 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~--~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~  155 (198)
                      ||++++.+|+.+..|..++.....    ...|+||++||+|+.+  .+.++...+..++...+ ++|+++||+...||++
T Consensus        89 ydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~  168 (210)
T KOG0394|consen   89 YDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDE  168 (210)
T ss_pred             eecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHH
Confidence            999999999999999999987765    4589999999999975  37889999999999886 8999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          156 AFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       156 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      +|+.+.+.++............-...+.......+.++ ||
T Consensus       169 AFe~ia~~aL~~E~~~~~~~~~~~d~i~~~~~~~~~~~-~c  208 (210)
T KOG0394|consen  169 AFEEIARRALANEDREIAELADYSDQIVLSTKANNQSS-GC  208 (210)
T ss_pred             HHHHHHHHHHhccchhhhhhhhcCcccccccccccCCC-CC
Confidence            99999999987665433333344455555555555555 55

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=6.3e-38  Score=226.53  Aligned_cols=193  Identities=37%  Similarity=0.683  Sum_probs=159.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+++|++|||||||+++|..+.+...+.++.+.++....+.++ +..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999998888888888877777777777 7778999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~----~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~~~  157 (198)
                      ||+++++++..+..|+..+....    ..++|+++|+||+|+...+.+..+++.++++..+ ..++++||++|.|++++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            99999999999999998876532    2568999999999997656678889999999998 689999999999999999


Q ss_pred             HHHHHHHHHhhhcCcCCCCC-CCCccccCC-CCCCCCCCcc
Q 043946          158 MAMTADIKNRMASQPAMNNA-RPPTVQIKG-QPVNQKASCC  196 (198)
Q Consensus       158 ~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~cc  196 (198)
                      ++|.+.+.+.......+.++ +.+.+...+ .+.+++++||
T Consensus       161 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  201 (201)
T cd04107         161 RFLVKNILANDKNLQQAETPEDGSVIDLKQTTTKKKSKGCC  201 (201)
T ss_pred             HHHHHHHHHhchhhHhhcCCCcccccccccceeccccCCCC
Confidence            99999987755443333322 223333333 3344445687

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.1e-38  Score=218.82  Aligned_cols=170  Identities=54%  Similarity=0.847  Sum_probs=163.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+++|.++||||-|+.||....+..+..+|+++++....+.+++..++.+||||+|+++|+.+...|++.+.+++
T Consensus        12 dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAl   91 (222)
T KOG0087|consen   12 DYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGAL   91 (222)
T ss_pred             ceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeE
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++...+|+.+..|+.+++.+...++++++|+||+||...+.++.++.+.++++.+..++++||.++.|++++|+.+
T Consensus        92 lVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~  171 (222)
T KOG0087|consen   92 LVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERV  171 (222)
T ss_pred             EEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHH
Confidence            99999999999999999999999999999999999999999888899999999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      +..+.+...+
T Consensus       172 l~~I~~~vs~  181 (222)
T KOG0087|consen  172 LTEIYKIVSK  181 (222)
T ss_pred             HHHHHHHHHH
Confidence            9888776554

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=1.5e-37  Score=224.12  Aligned_cols=195  Identities=57%  Similarity=0.898  Sum_probs=168.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..++..+|+++
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ii   83 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVI   83 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEE
Confidence            36799999999999999999999998888788888887887788888888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||+++++++..+..|+..+.... ...|+++|+||+|+.+...+..++...++...+.+++++|+++|.|++++|++|
T Consensus        84 lv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l  162 (199)
T cd04110          84 VVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCI  162 (199)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHH
Confidence            9999999999999999999887654 468999999999998766667788888888889999999999999999999999


Q ss_pred             HHHHHHhhhcCcCCCCCCCCccccCCCCC-CCCCCcc
Q 043946          161 TADIKNRMASQPAMNNARPPTVQIKGQPV-NQKASCC  196 (198)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~cc  196 (198)
                      .+.+......................+.. ++++.||
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (199)
T cd04110         163 TELVLRAKKDNLAKQQQQQQNDVVKLPKNSKRKKRCC  199 (199)
T ss_pred             HHHHHHhhhccCcccccCCccccCccchhccccccCC
Confidence            99998877776666666655555555555 6666677

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=1.1e-37  Score=222.26  Aligned_cols=168  Identities=44%  Similarity=0.738  Sum_probs=153.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|..|||||||+++|....+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~il   83 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGII   83 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEE
Confidence            46899999999999999999999998887777788887787788888998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.+|..+..|+..+.... .+.|++||+||.|+.+.+.+..++++.+++..+++++++||++|.|++++|++|
T Consensus        84 lVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l  162 (189)
T cd04121          84 LVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTEL  162 (189)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHH
Confidence            9999999999999999999997765 479999999999998777788999999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+..+..
T Consensus       163 ~~~i~~~~~  171 (189)
T cd04121         163 ARIVLMRHG  171 (189)
T ss_pred             HHHHHHhcC
Confidence            998876444

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.4e-37  Score=224.79  Aligned_cols=187  Identities=34%  Similarity=0.551  Sum_probs=155.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+++|..+.+.. +.++.+.++....+    ..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999988764 46666554443332    3478999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-------------------CCcCCHHHHHHHHHHhC-----
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-------------------KKVVSYETAKAFADEIG-----  139 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~-----  139 (198)
                      |++++++|..+..|+..+......+.|+++|+||+|+.+                   .+.+..+++..+++..+     
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            999999999999888777766556789999999999975                   46778889999998876     


Q ss_pred             ---------CcEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          140 ---------IPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       140 ---------~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                               ++|+++||++|.||+++|.++.+.+.....+...+ .++.......+.++.+|++||
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  220 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAE-ANRTQGTVNLPNPKRSKSKCC  220 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhh-hhhhhccccCCCcccCCCCCC
Confidence                     68999999999999999999999998766665553 333355555667788888898

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=7e-37  Score=219.43  Aligned_cols=190  Identities=48%  Similarity=0.906  Sum_probs=160.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+++|++|||||||+++|....+.. .+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            589999999999999999999887653 5667777677666778888889999999999999888888999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|+++++++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++|+++||++|.|++++|++|.+
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~  160 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAK  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998876667999999999999766667778888898889999999999999999999999999


Q ss_pred             HHHHhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          163 DIKNRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      .+.+...+.+...+   -..++.....+++++||
T Consensus       161 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~  191 (191)
T cd04112         161 ELKHRKYEQPDEGK---FKISDYVTKQKKISRCC  191 (191)
T ss_pred             HHHHhccccCCCCc---EEeccccCcccccCCCC
Confidence            99876433222211   12445556778888898

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.4e-38  Score=207.24  Aligned_cols=191  Identities=58%  Similarity=0.928  Sum_probs=168.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++.+|+|.+|+|||+|+.+|....+..+|..+++.++..+++.++|..++++|||++|++.|..+...+++..+++++
T Consensus         7 hLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~v   86 (198)
T KOG0079|consen    7 HLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIV   86 (198)
T ss_pred             HHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEE
Confidence            35678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||+++.+||.+...|++.++..+. ..|-++|+||.|.++.+.+..+++..++...++.+|++|+++..|++.+|.-|.
T Consensus        87 VYDVTn~ESF~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit  165 (198)
T KOG0079|consen   87 VYDVTNGESFNNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCIT  165 (198)
T ss_pred             EEECcchhhhHhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHH
Confidence            9999999999999999999988766 689999999999999888999999999999999999999999999999999999


Q ss_pred             HHHHHhh-hcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          162 ADIKNRM-ASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       162 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      +.+.+.. .+....  .+.....+.+++.. ++.||
T Consensus       166 ~qvl~~k~r~~~~~--~r~~~~~l~~n~~~-~~k~c  198 (198)
T KOG0079|consen  166 KQVLQAKLRESVEQ--QRADAVSLKDNSKS-TKKCC  198 (198)
T ss_pred             HHHHHHHHhhcHHH--HhhcceEeccCCCc-cccCC
Confidence            9888755 333222  23344444444443 34676

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=5e-37  Score=219.99  Aligned_cols=185  Identities=31%  Similarity=0.578  Sum_probs=156.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|.+|||||||+++|..+.+...+.++.+.... ..+..++..+.+.+||++|++.+..++..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYR-KQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            6899999999999999999988887777777664443 455677877899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ++++.++..+..|+..+.....   .+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|++|.
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999988876543   4689999999999977667777778888888899999999999999999999999


Q ss_pred             HHHHHhhhcCcCCCCCCCCccccCCCCCCCCCCccC
Q 043946          162 ADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCCS  197 (198)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc~  197 (198)
                      +.+.++......+       .........++.+|||
T Consensus       160 ~~l~~~~~~~~~~-------~~~~~~~~~~~~~~~~  188 (190)
T cd04144         160 RALRQQRQGGQGP-------KGGPTKKKEKKKRKCV  188 (190)
T ss_pred             HHHHHhhcccCCC-------cCCCCCcccccccCce
Confidence            9888766664311       3345566777777886

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=2.5e-36  Score=212.25  Aligned_cols=166  Identities=67%  Similarity=1.149  Sum_probs=152.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |+.+||+++|++|||||||++++.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++|
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            68899999999999999999999999988888888888887778888888899999999999998888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||+++++++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++..++.+++++||++|.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999887766679999999999998776677888888999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+..
T Consensus       161 ~~~~~~  166 (167)
T cd01867         161 AKDIKK  166 (167)
T ss_pred             HHHHHh
Confidence            998864

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=6.9e-36  Score=213.81  Aligned_cols=185  Identities=56%  Similarity=0.886  Sum_probs=158.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..++..+|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999887778888887787788888888899999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+......+.|+++++||.|+.+...+..++...++...+++++++||++|.|++++|++|.+.
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~  160 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKL  160 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999988766678999999999998766677788888888889999999999999999999999999


Q ss_pred             HHHhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          164 IKNRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      +.++......+.        ..-.+...|+.||
T Consensus       161 ~~~~~~~~~~~~--------~~~~~~~~~~~~~  185 (188)
T cd04125         161 IIKRLEEQELSP--------KNIKQQFKKKNNC  185 (188)
T ss_pred             HHHHhhcCcCCc--------cccccccccccCc
Confidence            987544432221        2233445566666

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=3.6e-36  Score=211.23  Aligned_cols=165  Identities=48%  Similarity=0.885  Sum_probs=150.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|++|||||||+++|..+.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         1 ~~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~il   80 (166)
T cd04122           1 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   80 (166)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            46899999999999999999999998888888888777777778888888999999999999999889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++.++++..+++++++||++|.|++++|.++.
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~  160 (166)
T cd04122          81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA  160 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999988777666789999999999987777788889999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T cd04122         161 KKIYQ  165 (166)
T ss_pred             HHHhh
Confidence            87753

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=4.3e-37  Score=204.60  Aligned_cols=197  Identities=41%  Similarity=0.678  Sum_probs=170.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEE-CCeEEEEEEEeCCCcccccccccccccCccEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQ-DGKTVKLQIWDTAGQERFRTITSSYYRGAHGI   79 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~   79 (198)
                      +|.+|.+|+|.+-+|||+|++++..+++.+-..|+.+.++..+.++. +|..+++++|||+|++.+..+.+.|+++.-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            57899999999999999999999999999999999999887777665 46678999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcC-CC-CcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYAS-EN-VNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~-~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      ++|||++++.||.++..|+.+...+.. +. .-+.+|++|+|+...+++..++.++++..+++.|+++|+++|.|++|.|
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF  165 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAF  165 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHH
Confidence            999999999999999999988766654 33 4457788999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcCCC--------CCCCCccccCCCCCCCCCCccC
Q 043946          158 MAMTADIKNRMASQPAMN--------NARPPTVQIKGQPVNQKASCCS  197 (198)
Q Consensus       158 ~~l~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~cc~  197 (198)
                      ..|.+.+.....+.....        .-.|..++-++...+..+.|||
T Consensus       166 ~mlaqeIf~~i~qGeik~edgw~gvKSsrpn~i~~s~~~~~P~k~c~C  213 (213)
T KOG0091|consen  166 DMLAQEIFQAIQQGEIKLEDGWGGVKSSRPNQIPRSPSRKQPSKPCQC  213 (213)
T ss_pred             HHHHHHHHHHHhcCceeeeeccccccccCCCcCCCcccccCCCCCCCC
Confidence            999999988777622221        1344555566666777788988

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=2.1e-35  Score=214.51  Aligned_cols=171  Identities=45%  Similarity=0.790  Sum_probs=150.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEE-CCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQ-DGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |.+||+|+|.+|||||||+++|....+...+.++.+.++....+.+ ++..+.+.+||++|++.+..++..++.++|+++
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL   80 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEE
Confidence            5799999999999999999999998888777788877777777766 456789999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||+++++++..+..|+..+..... ...|+++|+||.|+.+...+..++...+++.++++++++||++|.|++++|++
T Consensus        81 lv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~  160 (211)
T cd04111          81 LVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFEL  160 (211)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999998876543 35778999999999877777888889999999999999999999999999999


Q ss_pred             HHHHHHHhhhcCc
Q 043946          160 MTADIKNRMASQP  172 (198)
Q Consensus       160 l~~~~~~~~~~~~  172 (198)
                      |.+.+.++.....
T Consensus       161 l~~~~~~~~~~~~  173 (211)
T cd04111         161 LTQEIYERIKRGE  173 (211)
T ss_pred             HHHHHHHHhhcCC
Confidence            9999987766543

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=3.5e-35  Score=210.97  Aligned_cols=188  Identities=34%  Similarity=0.634  Sum_probs=155.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+|+|.+|||||||+++|..+.+.. .+.++.+.++....+..++..+.+.+||++|.+.+..++..++..+|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999988764 5677777777777888999889999999999999888888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC----CcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK----KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      ||++++.++..+..|+..+.... .+.|+++|+||+|+.+.    ..+..+++..++...+++++++||+++.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999998886653 36899999999998542    23445677778888889999999999999999999


Q ss_pred             HHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          159 AMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       159 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      +|.+.+.+...+.....    +...+..++.+..++||
T Consensus       160 ~i~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~  193 (193)
T cd04118         160 KVAEDFVSRANNQMNTE----KGVDLGQKKNSYFYSCC  193 (193)
T ss_pred             HHHHHHHHhcccccCCC----CccccCCcCCCCCCCCC
Confidence            99999987655442222    22223344556888898

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.4e-36  Score=199.01  Aligned_cols=177  Identities=49%  Similarity=0.798  Sum_probs=166.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+|++++|+.|.|||+|+.+|+..++......++++++..+.+.++++.++++||||+|++.|......|++.+.+.+
T Consensus         7 DyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAl   86 (214)
T KOG0086|consen    7 DYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGAL   86 (214)
T ss_pred             hhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceE
Confidence            68899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++++|..+..|+...+.+...++-+++++||.|+.+.+++...+...++++..+.+.++|+++|+|++|.|-..
T Consensus        87 LVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c  166 (214)
T KOG0086|consen   87 LVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC  166 (214)
T ss_pred             EEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCcCCCCC
Q 043946          161 TADIKNRMASQPAMNNA  177 (198)
Q Consensus       161 ~~~~~~~~~~~~~~~~~  177 (198)
                      .+.+..+.+.....+.+
T Consensus       167 ~~tIl~kIE~GElDPer  183 (214)
T KOG0086|consen  167 ARTILNKIESGELDPER  183 (214)
T ss_pred             HHHHHHHHhhcCCCHHH
Confidence            99888877765554443

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=1.9e-35  Score=208.54  Aligned_cols=166  Identities=33%  Similarity=0.558  Sum_probs=147.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+||++|.+.+..++..++..+|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            58999999999999999999999988877778876444 45577888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.++.++...+++..+++|+++||++|.|++++|++|.
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~  160 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLV  160 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHH
Confidence            999999999999999888876533 5799999999999987777888888999999999999999999999999999999


Q ss_pred             HHHHHhhh
Q 043946          162 ADIKNRMA  169 (198)
Q Consensus       162 ~~~~~~~~  169 (198)
                      +.+.+...
T Consensus       161 ~~~~~~~~  168 (172)
T cd04141         161 REIRRKES  168 (172)
T ss_pred             HHHHHhcc
Confidence            98886443

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=2.2e-35  Score=207.14  Aligned_cols=165  Identities=86%  Similarity=1.330  Sum_probs=149.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|++|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         1 ~~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~   80 (166)
T cd01869           1 YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIII   80 (166)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEE
Confidence            46899999999999999999999988877778888877777888888888899999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||+++++++..+..|+..+......+.|+++++||+|+.....+..+++..+++..+++++++|+++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~  160 (166)
T cd01869          81 VYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMA  160 (166)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHH
Confidence            99999999999999999998877656789999999999987777778888999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T cd01869         161 REIKK  165 (166)
T ss_pred             HHHHh
Confidence            87753

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=2.1e-35  Score=211.40  Aligned_cols=168  Identities=36%  Similarity=0.662  Sum_probs=146.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||++++..+.+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv   83 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCV   83 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEE
Confidence            58999999999999999999999888777777776544 46677888888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||+++++++..+..|+..+..... .+.|+++|+||+|+.+...+..++...++..++++++++||++|.|++++|++|.
T Consensus        84 ~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~  163 (189)
T PTZ00369         84 YSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELV  163 (189)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            999999999999999988876543 4789999999999976666677778888888889999999999999999999999


Q ss_pred             HHHHHhhhcC
Q 043946          162 ADIKNRMASQ  171 (198)
Q Consensus       162 ~~~~~~~~~~  171 (198)
                      +.+.+...+.
T Consensus       164 ~~l~~~~~~~  173 (189)
T PTZ00369        164 REIRKYLKED  173 (189)
T ss_pred             HHHHHHhhcc
Confidence            9887654443

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=3.3e-35  Score=207.37  Aligned_cols=160  Identities=35%  Similarity=0.660  Sum_probs=143.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+.++..+.+...+.++.+..+ ...+..++..+++.+||++|++.+..++..+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            7999999999999999999999999888889887655 355778888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCC----------cCCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           84 DVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDKK----------VVSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        84 d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      |++++.+|..+ ..|+..+.... .+.|+++|+||+|+.+.+          .+..++...+++..++ .|+++||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 68999987765 479999999999996532          4778899999999998 59999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADIK  165 (198)
Q Consensus       152 ~i~~~~~~l~~~~~  165 (198)
                      ||+++|+.+.+.+.
T Consensus       160 nV~~~F~~~~~~~~  173 (176)
T cd04133         160 NVKAVFDAAIKVVL  173 (176)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998764

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=1.1e-34  Score=210.73  Aligned_cols=169  Identities=51%  Similarity=0.894  Sum_probs=152.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|....+...+.++.+.++....+.+++..+.+.+||++|.+.+..++..++..+|++|
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~v   83 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGAL   83 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            46799999999999999999999998887777888887777778888888889999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++++||+|+.+.+.+..++.+++++.++++++++|++++.|++++|+++
T Consensus        84 lv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l  163 (210)
T PLN03108         84 LVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKT  163 (210)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999988876666679999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.++..
T Consensus       164 ~~~~~~~~~  172 (210)
T PLN03108        164 AAKIYKKIQ  172 (210)
T ss_pred             HHHHHHHhh
Confidence            999876544

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=4e-35  Score=208.46  Aligned_cols=167  Identities=44%  Similarity=0.833  Sum_probs=148.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC----------CeEEEEEEEeCCCccccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD----------GKTVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~g~~~~~~~~~   70 (198)
                      +|.+||+++|++|||||||+++|....+...+.++.+.++....+.+.          +..+.+.+||+||++.+...+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            478999999999999999999999999888888888877766666554          4568899999999999999999


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      .+++++|++++|||+++++++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..+++.++++++++||++
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  161 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAAT  161 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCC
Confidence            999999999999999999999999999998876542 4689999999999987777788888999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q 043946          150 SLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~  167 (198)
                      |.|++++|++|.+.+.++
T Consensus       162 ~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         162 GTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999887654

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=2.9e-35  Score=208.85  Aligned_cols=162  Identities=31%  Similarity=0.599  Sum_probs=145.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+...+.|+.+..+. ..+.+++..+.+.+|||+|++.+..++..+++++|++|+
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~il   82 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI   82 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEE
Confidence            4689999999999999999999999998888888875554 567888988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.+|..+ ..|+..+.... .+.|+++|+||.|+.+            .+.++.++++++++.+++ +|+++||
T Consensus        83 vyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SA  161 (182)
T cd04172          83 CFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  161 (182)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCc
Confidence            9999999999997 78999988765 4689999999999864            235788999999999996 8999999


Q ss_pred             cCCCC-HHHHHHHHHHHHH
Q 043946          148 KDSLN-VEQAFMAMTADIK  165 (198)
Q Consensus       148 ~~~~~-i~~~~~~l~~~~~  165 (198)
                      ++|.| |+++|+.+++.+.
T Consensus       162 k~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         162 LQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CCCCCCHHHHHHHHHHHHh
Confidence            99998 9999999998654

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6.2e-36  Score=195.70  Aligned_cols=171  Identities=51%  Similarity=0.970  Sum_probs=162.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||-+|++|+|.+.+|||||+.++++..+...+.++.+.++..+++.-..+.+++++|||+|++.+..+...++++++++|
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfi   98 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEE
Confidence            57789999999999999999999999999999999999999998888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      ++||+++.+||..++.|.-.+..+.-.+.|+|+|+||+|+.+++.++.+....++..+|..|+++||+.+.|++.+|+.+
T Consensus        99 LmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~l  178 (193)
T KOG0093|consen   99 LMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERL  178 (193)
T ss_pred             EEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHH
Confidence            99999999999999999999998888899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      ...+-+.+.+.
T Consensus       179 v~~Ic~kmses  189 (193)
T KOG0093|consen  179 VDIICDKMSES  189 (193)
T ss_pred             HHHHHHHhhhh
Confidence            99888766543

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=8.9e-35  Score=212.53  Aligned_cols=164  Identities=28%  Similarity=0.552  Sum_probs=146.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.||||+|++.+..++..++..+|++|+
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIl   90 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLL   90 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEE
Confidence            3589999999999999999999999998888898876654 457888999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++++|..+ ..|+..+.... .+.|+++|+||+|+.+            .+.++.++++++++.+++ .|+++||
T Consensus        91 VyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSA  169 (232)
T cd04174          91 CFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSA  169 (232)
T ss_pred             EEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccC
Confidence            9999999999974 78999888765 3689999999999864            256788999999999998 6999999


Q ss_pred             cCCC-CHHHHHHHHHHHHHHh
Q 043946          148 KDSL-NVEQAFMAMTADIKNR  167 (198)
Q Consensus       148 ~~~~-~i~~~~~~l~~~~~~~  167 (198)
                      ++|. ||+++|+.+...+.++
T Consensus       170 ktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         170 FTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             CcCCcCHHHHHHHHHHHHHHh
Confidence            9997 8999999999988764

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=6.9e-35  Score=212.64  Aligned_cols=164  Identities=35%  Similarity=0.582  Sum_probs=147.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC-eEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+++|.+|||||||+++|....+...+.++.+.++....+.+++ ..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999988888889988888777787764 468999999999999888999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      ||+++++++..+..|+..+.....   .+.|+++|+||+|+.+.+.+..++...+++.++++++++||++|.|++++|++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999877643   34689999999999877777888889999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 043946          160 MTADIKNR  167 (198)
Q Consensus       160 l~~~~~~~  167 (198)
                      |.+.+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99988754

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=4.3e-35  Score=204.74  Aligned_cols=160  Identities=51%  Similarity=0.922  Sum_probs=146.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||++++..+.+.+.+.++.+.+.....+..++..+.+.+||++|.+.+..++..++..+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999988888888888777788888888899999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+......+.|+++|+||.|+.+.+.+..++...+++.++++|+++||++|.|++++|++|.+.
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            99999999999999998877665679999999999998777778889999999999999999999999999999999864

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=8e-35  Score=204.75  Aligned_cols=166  Identities=53%  Similarity=0.932  Sum_probs=151.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|.+|||||||++++.+..+...+.++.+.+.....+..++....+.+||++|.+.+..++..+++.+|+++
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            57899999999999999999999998887777788888887788888888889999999999998888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||.|+.+...+..++.+.++...++.++++|++++.|++++|.++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~  161 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINT  161 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999887766679999999999998766777888888999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       162 ~~~~~~  167 (168)
T cd01866         162 AKEIYE  167 (168)
T ss_pred             HHHHHh
Confidence            988754

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=8.2e-35  Score=204.13  Aligned_cols=163  Identities=53%  Similarity=0.964  Sum_probs=146.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++.+|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999888788888877777777777777789999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+......+.|+++|+||+|+.+.+.+..++..+++..++++++++||++|.|++++|++|.+.
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  161 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDI  161 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999877665678999999999998776667788888888888999999999999999999999887


Q ss_pred             HHH
Q 043946          164 IKN  166 (198)
Q Consensus       164 ~~~  166 (198)
                      +.+
T Consensus       162 ~~~  164 (165)
T cd01865         162 ICD  164 (165)
T ss_pred             HHh
Confidence            643

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=7.9e-35  Score=204.14  Aligned_cols=164  Identities=55%  Similarity=0.903  Sum_probs=149.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|.+|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.++++|
T Consensus         1 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i   80 (165)
T cd01868           1 DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGAL   80 (165)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEE
Confidence            57899999999999999999999998887778888888888888888888889999999999998888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||.|+.+.+....++...++...+++++++||++|.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  160 (165)
T cd01868          81 LVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQL  160 (165)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999888766679999999999998777777888888888888999999999999999999999


Q ss_pred             HHHH
Q 043946          161 TADI  164 (198)
Q Consensus       161 ~~~~  164 (198)
                      .+.+
T Consensus       161 ~~~i  164 (165)
T cd01868         161 LTEI  164 (165)
T ss_pred             HHHh
Confidence            8764

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=1e-34  Score=208.08  Aligned_cols=163  Identities=31%  Similarity=0.578  Sum_probs=142.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|..|||||||+++|..+.+.+.+.++.+..+. ..+.+++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         2 ~~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~il   80 (191)
T cd01875           2 QSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFII   80 (191)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEE
Confidence            3589999999999999999999999998888888875543 456678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhC-CcEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIG-IPFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~S~  147 (198)
                      |||++++.+|..+. .|...+.... .+.|+++|+||.|+.+..            .+..++...+++.++ .+|+++||
T Consensus        81 vydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA  159 (191)
T cd01875          81 CFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSA  159 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCC
Confidence            99999999999996 5888776654 479999999999996542            356678888999888 58999999


Q ss_pred             cCCCCHHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++|.|++++|++|.+.+..
T Consensus       160 k~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         160 LNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCCHHHHHHHHHHHHhc
Confidence            9999999999999988754

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=5.7e-36  Score=198.35  Aligned_cols=167  Identities=38%  Similarity=0.746  Sum_probs=157.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|..-+|||||+-|+...++...+.++....+..+.+.+++....+.||||+|++.|..+-+.|++..+++++
T Consensus        12 ~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalL   91 (218)
T KOG0088|consen   12 FKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALL   91 (218)
T ss_pred             eeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEE
Confidence            57899999999999999999999999988888888777888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++|++||..+..|..+++.+.+..+-++||+||+|+.+.+.+..++.+.++..-|+.|+++||+++.||.|+|+.|.
T Consensus        92 VyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt  171 (218)
T KOG0088|consen   92 VYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLT  171 (218)
T ss_pred             EEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHH
Confidence            99999999999999999999999998899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhh
Q 043946          162 ADIKNRM  168 (198)
Q Consensus       162 ~~~~~~~  168 (198)
                      ..+.++.
T Consensus       172 ~~MiE~~  178 (218)
T KOG0088|consen  172 AKMIEHS  178 (218)
T ss_pred             HHHHHHh
Confidence            8887755

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=9.6e-35  Score=203.97  Aligned_cols=162  Identities=31%  Similarity=0.698  Sum_probs=147.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|.+.+..++..+++.+|++|+|+
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999988888899888888888888888899999999999998889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-----ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      |++++.++..+..|+..+.....     .+.|+++|+||+|+.+......++...++...+++++++||++|.|++++|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999877654     4689999999999976556678888888888889999999999999999999


Q ss_pred             HHHHHHH
Q 043946          159 AMTADIK  165 (198)
Q Consensus       159 ~l~~~~~  165 (198)
                      +|.+.+.
T Consensus       161 ~l~~~l~  167 (168)
T cd04119         161 TLFSSIV  167 (168)
T ss_pred             HHHHHHh
Confidence            9998775

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=1.2e-34  Score=205.21  Aligned_cols=161  Identities=32%  Similarity=0.590  Sum_probs=142.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.+|||+|++.+..++..+++.+|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            479999999999999999999999998888888875553 5677888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhCC-cEEEEecc
Q 043946           83 YDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIGI-PFMETSAK  148 (198)
Q Consensus        83 ~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~S~~  148 (198)
                      ||++++++|..+ ..|+..+.... .+.|+++|+||.|+.+            .+.+..++..++++.+++ .|+++||+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            999999999996 78999888765 4689999999999864            235788999999999997 79999999


Q ss_pred             CCCC-HHHHHHHHHHHHH
Q 043946          149 DSLN-VEQAFMAMTADIK  165 (198)
Q Consensus       149 ~~~~-i~~~~~~l~~~~~  165 (198)
                      +|.+ ++++|..+.+...
T Consensus       159 ~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         159 TSEKSVRDIFHVATMACL  176 (178)
T ss_pred             cCCcCHHHHHHHHHHHHh
Confidence            9995 9999999998644

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=1.5e-34  Score=202.81  Aligned_cols=163  Identities=53%  Similarity=0.958  Sum_probs=147.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|++|||||||+++|..+.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         1 ~~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~l   80 (165)
T cd01864           1 DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAI   80 (165)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            57899999999999999999999988888777788877777788888888789999999999998888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++..+. .++++|+++|.|++++|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          81 IAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999999876666799999999999987777777888888888886 6899999999999999999


Q ss_pred             HHHH
Q 043946          160 MTAD  163 (198)
Q Consensus       160 l~~~  163 (198)
                      |.+.
T Consensus       161 l~~~  164 (165)
T cd01864         161 MATE  164 (165)
T ss_pred             HHHh
Confidence            9865

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=3.5e-34  Score=203.65  Aligned_cols=162  Identities=27%  Similarity=0.569  Sum_probs=142.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|..|||||||+++|..+.+.+.+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998888999888887788888998899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----CcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK-----KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~-----~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      |++++.++..+..|+..+........| ++|+||+|+...     .....++...+++..+++++++||++|.|++++|+
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~  159 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFK  159 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999988776555566 678999998521     11224566778888889999999999999999999


Q ss_pred             HHHHHHHH
Q 043946          159 AMTADIKN  166 (198)
Q Consensus       159 ~l~~~~~~  166 (198)
                      +|.+.+.+
T Consensus       160 ~l~~~l~~  167 (182)
T cd04128         160 IVLAKAFD  167 (182)
T ss_pred             HHHHHHHh
Confidence            99988875

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=6.7e-34  Score=206.91  Aligned_cols=164  Identities=27%  Similarity=0.552  Sum_probs=142.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+|+|.+|||||||+++|..+.++..+.|+.+..+. ..+.+++..+.+.+||++|++.+..++..++..+|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            79999999999999999999999998889998876554 56788898999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      |++++++|..+. .|...+... ..+.|+++|+||+|+.+.            ..++.++...+++..++ .|+++||++
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~-~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEF-CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            999999999985 577666544 357999999999999642            13677889999999996 899999999


Q ss_pred             CCC-HHHHHHHHHHHHHHhhh
Q 043946          150 SLN-VEQAFMAMTADIKNRMA  169 (198)
Q Consensus       150 ~~~-i~~~~~~l~~~~~~~~~  169 (198)
                      +.+ |+++|+.+......+..
T Consensus       160 ~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         160 SERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             CCcCHHHHHHHHHHHHHhccC
Confidence            884 99999999998776444

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=4e-34  Score=199.96  Aligned_cols=161  Identities=47%  Similarity=0.873  Sum_probs=152.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|+++||||||+++|.+..+.+.+.++.+.+.....+..++..+.+.+||++|++.+...+..++.++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999999999998888888999999999999999999999998888999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +++++++..+..|+..+......+.|+++++||.|+.+.+.++.++++++++.++++|+++|++++.|+.++|..+++.+
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            99999999999999999988876799999999999988788899999999999999999999999999999999999887


Q ss_pred             H
Q 043946          165 K  165 (198)
Q Consensus       165 ~  165 (198)
                      .
T Consensus       161 ~  161 (162)
T PF00071_consen  161 L  161 (162)
T ss_dssp             H
T ss_pred             h
Confidence            5

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=1.5e-33  Score=205.09  Aligned_cols=166  Identities=52%  Similarity=0.805  Sum_probs=142.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+. .+.++.+.+.....+.+++..+.+.+||+||++.+..++..+++.+|++|+
T Consensus        13 ~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vl   91 (211)
T PLN03118         13 LSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIIL   91 (211)
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            4689999999999999999999987763 566777777777778888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHH-HHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQ-WLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~-~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |||+++++++..+.. |...+.... ..+.|+++|+||+|+.....+..++...++...++.|+++||+++.|++++|++
T Consensus        92 v~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~  171 (211)
T PLN03118         92 VYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEE  171 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999876 656555433 245799999999999876667777888888888999999999999999999999


Q ss_pred             HHHHHHHhh
Q 043946          160 MTADIKNRM  168 (198)
Q Consensus       160 l~~~~~~~~  168 (198)
                      |.+.+.+..
T Consensus       172 l~~~~~~~~  180 (211)
T PLN03118        172 LALKIMEVP  180 (211)
T ss_pred             HHHHHHhhh
Confidence            999887643

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=8.1e-35  Score=191.17  Aligned_cols=169  Identities=48%  Similarity=0.863  Sum_probs=159.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|..|+|||+|+++|..+-+++....+++.++-.+++++++.+++++||||+|++++..+...|++.++++|+
T Consensus         6 flfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalil   85 (213)
T KOG0095|consen    6 FLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALIL   85 (213)
T ss_pred             eeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEE
Confidence            67999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++...+|+-+..|+.++..+...++--|+|+||+|+.+.++++.+..++++....+-|+++||++-.|++.+|..+.
T Consensus        86 vydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a  165 (213)
T KOG0095|consen   86 VYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLA  165 (213)
T ss_pred             EEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHH
Confidence            99999999999999999999999988888899999999999889988889999999999999999999999999999998


Q ss_pred             HHHHHhhhc
Q 043946          162 ADIKNRMAS  170 (198)
Q Consensus       162 ~~~~~~~~~  170 (198)
                      -.+......
T Consensus       166 ~rli~~ar~  174 (213)
T KOG0095|consen  166 CRLISEARQ  174 (213)
T ss_pred             HHHHHHHHh
Confidence            877665544

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=5.9e-34  Score=199.19  Aligned_cols=160  Identities=41%  Similarity=0.716  Sum_probs=140.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||++++..+.+...+.++.+ +.....+..++..+.+.+||+||++.+..++..+++.+|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            7999999999999999999998888777777765 344566778888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...+++.++++++++||++|.|++++|++|.+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVR  160 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Confidence            99999999999999988876543 47899999999999766666677777788888899999999999999999999987


Q ss_pred             HH
Q 043946          163 DI  164 (198)
Q Consensus       163 ~~  164 (198)
                      .+
T Consensus       161 ~~  162 (163)
T cd04136         161 QI  162 (163)
T ss_pred             hc
Confidence            54

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.1e-33  Score=197.98  Aligned_cols=163  Identities=63%  Similarity=1.010  Sum_probs=148.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||.+.+...+..++..+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999998887778888888888888888888889999999999988888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.++..+..|+..+......+.|+++++||+|+........+.+.++++..+++++++|+++|.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~  160 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999887765689999999999997766677788888888889999999999999999999999988


Q ss_pred             HHH
Q 043946          164 IKN  166 (198)
Q Consensus       164 ~~~  166 (198)
                      +.+
T Consensus       161 ~~~  163 (164)
T smart00175      161 ILK  163 (164)
T ss_pred             Hhh
Confidence            764

Rab GTPases are implicated in vesicle trafficking.

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=9.9e-34  Score=202.49  Aligned_cols=166  Identities=29%  Similarity=0.595  Sum_probs=140.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+|+|.+|||||||+++|.++.+...+.++.+.++.. .+... +..+.+.+||+||++.+..++..++..+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999998887877777655543 35554 6678999999999999988899999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC----CcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK----KVVSYETAKAFADEIGI-PFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~----~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~  156 (198)
                      ||++++.++..+. .|+..+.... .+.|+++|+||.|+...    +.+..++..+++..+++ +++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999999999886 4887776543 47899999999998653    24567888889999988 8999999999999999


Q ss_pred             HHHHHHHHHHhhhcC
Q 043946          157 FMAMTADIKNRMASQ  171 (198)
Q Consensus       157 ~~~l~~~~~~~~~~~  171 (198)
                      |+++.+.+.......
T Consensus       159 f~~l~~~~~~~~~~~  173 (187)
T cd04132         159 FDTAIEEALKKEGKA  173 (187)
T ss_pred             HHHHHHHHHhhhhhh
Confidence            999999998655443

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=7.7e-34  Score=198.36  Aligned_cols=160  Identities=49%  Similarity=0.861  Sum_probs=145.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++++|+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            68999999999999999999998887777888877777778888888889999999999999888899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.++..+..|+..+......+.|+++++||+|+.....+..+++..++...++.++++|++++.|++++|+++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999999998877766789999999999998766777888888999999999999999999999999999875

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=9.9e-34  Score=200.29  Aligned_cols=160  Identities=29%  Similarity=0.532  Sum_probs=139.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ++||+++|.+|||||||+++|..+.+...+.|+.+..+. ..+..++..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         1 ~~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            489999999999999999999999988888888875554 4567788889999999999999998999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhC-CcEEEEecc
Q 043946           83 YDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIG-IPFMETSAK  148 (198)
Q Consensus        83 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~S~~  148 (198)
                      ||+++++++..+. .|+..+.... .+.|+++|+||+|+.+.            +.+..+++.++++..+ ..|+++||+
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            9999999999996 5888886654 46899999999998643            4566778888888887 689999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTADI  164 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~  164 (198)
                      +|.|++++|+.+.+.+
T Consensus       159 tg~~v~~~f~~~~~~~  174 (175)
T cd01874         159 TQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999998753

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=1e-33  Score=206.67  Aligned_cols=165  Identities=30%  Similarity=0.557  Sum_probs=145.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++|+
T Consensus        12 ~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~il   91 (219)
T PLN03071         12 PSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAII   91 (219)
T ss_pred             CceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEE
Confidence            56899999999999999999999988888888998888887778778778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+.... .+.|+++|+||+|+.+. .+..+++ .+++..++.|+++||++|.|++++|+||.
T Consensus        92 vfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~  168 (219)
T PLN03071         92 MFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKNR-QVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLA  168 (219)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhhc-cCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHH
Confidence            999999999999999999987764 46999999999998643 3344555 67777889999999999999999999999


Q ss_pred             HHHHHhhh
Q 043946          162 ADIKNRMA  169 (198)
Q Consensus       162 ~~~~~~~~  169 (198)
                      +.+.+..+
T Consensus       169 ~~~~~~~~  176 (219)
T PLN03071        169 RKLAGDPN  176 (219)
T ss_pred             HHHHcCcc
Confidence            98876543

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1.1e-33  Score=198.22  Aligned_cols=161  Identities=38%  Similarity=0.699  Sum_probs=141.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||++++..+.+.+.+.++.+... ...+..++..+.+.+||+||++.+..++..+++.+|++++||
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVY   80 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEE
Confidence            6999999999999999999998888777777766444 356778888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |++++.++..+..|+..+.... ..+.|+++++||+|+.+...+..++...+++..+++++++||++|.|++++|.+|.+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  160 (164)
T cd04175          81 SITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVR  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHH
Confidence            9999999999999988887653 357999999999999876666777778888888899999999999999999999987


Q ss_pred             HHH
Q 043946          163 DIK  165 (198)
Q Consensus       163 ~~~  165 (198)
                      .+.
T Consensus       161 ~l~  163 (164)
T cd04175         161 QIN  163 (164)
T ss_pred             Hhh
Confidence            653

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2e-33  Score=197.19  Aligned_cols=160  Identities=31%  Similarity=0.643  Sum_probs=140.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++++.+.+...+.++.+.+.....+..++..+.+.+||++|++.+..++..++..+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            58999999999999999999988887778888887777777777888899999999999998888889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+..... +.|+++|+||+|+.+. ... .+...+++..+++++++||++|.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKDR-KVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            99999999999999999987765 7999999999999733 333 33445666777899999999999999999999988


Q ss_pred             HHH
Q 043946          164 IKN  166 (198)
Q Consensus       164 ~~~  166 (198)
                      +.+
T Consensus       158 ~~~  160 (166)
T cd00877         158 LLG  160 (166)
T ss_pred             HHh
Confidence            865

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=2.9e-33  Score=200.33  Aligned_cols=161  Identities=33%  Similarity=0.563  Sum_probs=137.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      .||+++|++|||||||+++|..+.+...+.++.+..+. ..+..++..+.+.+||++|++.+..++..++..+|++|+||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~   79 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCF   79 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEE
Confidence            38999999999999999999999888777787765543 45667787789999999999999889999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhC-CcEEEEeccC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIG-IPFMETSAKD  149 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~S~~~  149 (198)
                      |+++++++..+. .|+..+.... .+.|+++|+||+|+.+..            .+..++...++...+ ++|+++||++
T Consensus        80 dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  158 (189)
T cd04134          80 SVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKL  158 (189)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCc
Confidence            999999999886 5888887654 479999999999996543            234566677777776 6899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~  166 (198)
                      |.|++++|++|.+.+..
T Consensus       159 ~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         159 NRGVNEAFTEAARVALN  175 (189)
T ss_pred             CCCHHHHHHHHHHHHhc
Confidence            99999999999988873

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=2.8e-33  Score=195.62  Aligned_cols=159  Identities=37%  Similarity=0.704  Sum_probs=141.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC--CeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD--GKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +||+++|.+|+|||||+++|..+.+...+.++.+.++....+...  +..+.+.+||+||++.+...+..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999988887888888877766666666  667899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||+++++++..+..|+..+.... .+.|+++|+||+|+.....+..+++..+++..+++++++|+++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999998886654 4699999999999977667778888889999999999999999999999999987


Q ss_pred             HH
Q 043946          162 AD  163 (198)
Q Consensus       162 ~~  163 (198)
                      +.
T Consensus       160 ~~  161 (162)
T cd04106         160 EK  161 (162)
T ss_pred             Hh
Confidence            53

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=4.4e-33  Score=196.14  Aligned_cols=162  Identities=40%  Similarity=0.665  Sum_probs=142.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|.+|||||||+++|..+.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999999988999998888877888888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCc--CCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKV--VSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +++++++..+..|+..+.... ....|+++|+||+|+.....  ...++...++..++++++++||++|.|++++|+.|.
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~  161 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVA  161 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999998875543 34578999999999865433  235566677788889999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       162 ~~~~~  166 (170)
T cd04108         162 ALTFE  166 (170)
T ss_pred             HHHHH
Confidence            88864

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=3.9e-33  Score=196.50  Aligned_cols=161  Identities=43%  Similarity=0.740  Sum_probs=142.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+.+.+.++.+.+.....+.+++..+.+.+||+||++.+..++..+++.+|++++
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~   83 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLL   83 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEE
Confidence            57999999999999999999999988887777887777777788888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQA  156 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~  156 (198)
                      |||+++++++..+..|...+.....    .+.|+++|+||+|+. .+.+..+++++++..++. +++++||++|.|+.++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  162 (170)
T cd04116          84 TFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAA  162 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHH
Confidence            9999999999999999988766542    468999999999986 445677888889888884 7999999999999999


Q ss_pred             HHHHHHH
Q 043946          157 FMAMTAD  163 (198)
Q Consensus       157 ~~~l~~~  163 (198)
                      |+++.+.
T Consensus       163 ~~~~~~~  169 (170)
T cd04116         163 FEEAVRR  169 (170)
T ss_pred             HHHHHhh
Confidence            9999865

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=6.2e-33  Score=194.06  Aligned_cols=162  Identities=50%  Similarity=0.816  Sum_probs=146.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            47999999999999999999999888776777777777778888898889999999999998888888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|+++++++..+..|+..+......+.|+++++||+|+........++...++...+++++++|+++|.|++++|++|.+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAK  160 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999988776567999999999999766666788888888888999999999999999999999988


Q ss_pred             HH
Q 043946          163 DI  164 (198)
Q Consensus       163 ~~  164 (198)
                      .+
T Consensus       161 ~l  162 (163)
T cd01860         161 KL  162 (163)
T ss_pred             Hh
Confidence            75

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=5.8e-33  Score=195.66  Aligned_cols=163  Identities=46%  Similarity=0.856  Sum_probs=145.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc-ccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-TITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~~i   80 (198)
                      +.+||+++|++|||||||++++....+...+.++.+.+.....+.+++..+.+.+||++|++.+. .++..+++++|+++
T Consensus         1 r~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            36899999999999999999999988887788888877877888889988999999999998876 57888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC---CCCHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD---SLNVEQA  156 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~---~~~i~~~  156 (198)
                      +|||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++..++++..+++|+++||++   +.+++++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~  160 (170)
T cd04115          81 FVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAI  160 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHH
Confidence            99999999999999999988876543 5699999999999987777778888889988889999999999   8899999


Q ss_pred             HHHHHHHH
Q 043946          157 FMAMTADI  164 (198)
Q Consensus       157 ~~~l~~~~  164 (198)
                      |.+|.+.+
T Consensus       161 f~~l~~~~  168 (170)
T cd04115         161 FMTLAHKL  168 (170)
T ss_pred             HHHHHHHh
Confidence            99998765

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=3.9e-33  Score=195.15  Aligned_cols=161  Identities=37%  Similarity=0.653  Sum_probs=140.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||++++..+.+.+.+.++.+ +.....+..++..+.+.+||+||.+.+..++..++.++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            37999999999999999999999888777777654 44556777888888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.....+..++...++...+++++++||++|.|++++|.+|.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999888876543 5799999999999976656666677778888888999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       160 ~~l  162 (163)
T cd04176         160 RQM  162 (163)
T ss_pred             Hhc
Confidence            654

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=6e-33  Score=193.89  Aligned_cols=160  Identities=36%  Similarity=0.592  Sum_probs=138.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+++|....+.+.+.++.+.+........++..+.+.+||++|++.+..++..++..+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999998887777777666666666777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.++..+..|+..+.... .+.|+++|+||+|+...   ..++...++...+++++++||++|.|++++|+.+.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL  156 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            9999999999999999887653 36899999999998432   2344556667778899999999999999999999988


Q ss_pred             HHHh
Q 043946          164 IKNR  167 (198)
Q Consensus       164 ~~~~  167 (198)
                      +.++
T Consensus       157 ~~~~  160 (161)
T cd04124         157 AVSY  160 (161)
T ss_pred             HHhc
Confidence            8765

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=5.1e-33  Score=194.13  Aligned_cols=160  Identities=42%  Similarity=0.738  Sum_probs=144.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.++....+..++..+++.+||+||.+.+...+..+++.+|++++|+
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            48999999999999999999998888778888888888888888888889999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+......+.|+++++||+|+.+......++...+++..+++++++|++++.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            99999999999999998876655569999999999997666677788888888889999999999999999999999874

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=6e-33  Score=194.66  Aligned_cols=158  Identities=35%  Similarity=0.556  Sum_probs=137.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||++++.++.+...+.++.+..+ ...+...+..+.+.+||++|.+.+..++..++..+|++|+||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999888777777765444 345566777789999999999999888888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |+++++++..+..|+..+.....   .+.|+++|+||+|+...+.+..++...++..+++.++++||++|.|++++|++|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l  160 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQEL  160 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHH
Confidence            99999999999999887776543   468999999999997666677777778888888999999999999999999999


Q ss_pred             HH
Q 043946          161 TA  162 (198)
Q Consensus       161 ~~  162 (198)
                      .+
T Consensus       161 ~~  162 (165)
T cd04140         161 LN  162 (165)
T ss_pred             Hh
Confidence            75

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=4.9e-33  Score=194.80  Aligned_cols=161  Identities=41%  Similarity=0.737  Sum_probs=139.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+|+|++|||||||+++|.+..+...+.++.+. .....+..++..+.+.+||+||++.+..++..++..+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIED-SYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            58999999999999999999988887776666653 33456677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |+++++++..+..|+..+..... .+.|+++|+||+|+...+....+++..+++..+++++++||++|.|++++|++|.+
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  159 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHH
Confidence            99999999999998887766533 46899999999999776666777888888888999999999999999999999998


Q ss_pred             HHH
Q 043946          163 DIK  165 (198)
Q Consensus       163 ~~~  165 (198)
                      .+.
T Consensus       160 ~~~  162 (164)
T smart00173      160 EIR  162 (164)
T ss_pred             HHh
Confidence            765

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=6.3e-33  Score=196.01  Aligned_cols=159  Identities=32%  Similarity=0.575  Sum_probs=137.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+.++..+.+...+.++... .....+..++..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         1 ~~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (174)
T cd01871           1 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLIC   79 (174)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhcCCCCCcCCCccee-eeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEE
Confidence            379999999999999999999999888888888753 3345667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEecc
Q 043946           83 YDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSAK  148 (198)
Q Consensus        83 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~~  148 (198)
                      ||++++++|..+. .|+..+.... .+.|+++|+||.|+.+.            +.+..++..++++.++. +++++||+
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          80 FSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999999985 5888776654 47999999999999642            24677888889998884 89999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTAD  163 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~  163 (198)
                      +|.|++++|+.+.+.
T Consensus       159 ~~~~i~~~f~~l~~~  173 (174)
T cd01871         159 TQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccCCHHHHHHHHHHh
Confidence            999999999998764

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=1.1e-32  Score=192.30  Aligned_cols=160  Identities=36%  Similarity=0.680  Sum_probs=138.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.++.+...+.++.+... ...+.+++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            37999999999999999999999888777777765443 45567788778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.+ +....++...+++..+++++++||++|.|++++|++|.
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999988888876643 4789999999999975 34556777888888889999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04138         159 REI  161 (162)
T ss_pred             HHh
Confidence            654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=1.9e-32  Score=191.69  Aligned_cols=161  Identities=39%  Similarity=0.646  Sum_probs=139.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|+|||||++++.+..+...+.++.+.. ......+++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            5899999999999999999999887766666666533 345566788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+.... ..+.|+++++||+|+.....+..++..++++..+++++++||++|.|++++|++|.
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  160 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLV  160 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999988887653 34789999999999977666667778888888889999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       161 ~~~  163 (164)
T cd04145         161 RVI  163 (164)
T ss_pred             Hhh
Confidence            764

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=1.6e-32  Score=197.42  Aligned_cols=166  Identities=22%  Similarity=0.337  Sum_probs=137.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc--------cccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT--------ITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~   75 (198)
                      +||+|+|.+|||||||+++|..+.+...+.++.+.+.....+.+++..+.+.+||+||.+.+..        .....+..
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            5899999999999999999999888877888877666656677888888999999999654321        12345789


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-HhCCcEEEEeccCCC
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYA---SENVNKLLVGNKCDLTDKKVVSYETAKAFAD-EIGIPFMETSAKDSL  151 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~  151 (198)
                      +|++|+|||+++++++..+..|+..+....   ..+.|+++|+||+|+...+.+..++...++. .++++|+++||++|.
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  160 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNW  160 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCC
Confidence            999999999999999999999998887664   3579999999999997666566666666654 568999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhh
Q 043946          152 NVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~~  169 (198)
                      |++++|+.+.+.+..+-.
T Consensus       161 ~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         161 HILLLFKELLISATTRGR  178 (198)
T ss_pred             CHHHHHHHHHHHhhccCC
Confidence            999999999988875443

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=2.7e-32  Score=190.42  Aligned_cols=161  Identities=40%  Similarity=0.754  Sum_probs=142.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|+|||||+++|.+..+...+.++...+.....+...+..+.+.+||+||++.+..++..++..+|++++|+
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            58999999999999999999988877666666666666667777787789999999999988888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++++..+..|+..+......+.|+++++||+|+.....+..+++++++...+.+++++|++++.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~  160 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR  160 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999988887766679999999999998766677788888888889999999999999999999999876


Q ss_pred             H
Q 043946          164 I  164 (198)
Q Consensus       164 ~  164 (198)
                      +
T Consensus       161 ~  161 (162)
T cd04123         161 M  161 (162)
T ss_pred             h
Confidence            4

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.4e-32  Score=196.30  Aligned_cols=158  Identities=28%  Similarity=0.589  Sum_probs=139.7

Q ss_pred             EcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCCh
Q 043946            9 IGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ   88 (198)
Q Consensus         9 ~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~   88 (198)
                      +|.+|||||||+++|+.+.+...+.++.+.+.....+.+++..+.+.+||++|++.+..++..+++.+|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999998888878888888888888888888889999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946           89 ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus        89 ~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      .++..+..|+..+.... .+.|+++|+||+|+... .+..+. ..+++..++.|+++||++|.||+++|++|.+.+.+..
T Consensus        81 ~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~  157 (200)
T smart00176       81 VTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKDR-KVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP  157 (200)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccc-cCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhcc
Confidence            99999999999998765 47999999999998643 344444 3577788899999999999999999999999887653


Q ss_pred             h
Q 043946          169 A  169 (198)
Q Consensus       169 ~  169 (198)
                      +
T Consensus       158 ~  158 (200)
T smart00176      158 N  158 (200)
T ss_pred             c
Confidence            3

Ran is involved in the active transport of proteins through nuclear pores.

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.2e-32  Score=179.56  Aligned_cols=196  Identities=42%  Similarity=0.787  Sum_probs=173.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      |.+|-+++|.-|+|||+|+..|...++....+.++++++..+.+++.+.+++++|||++|++++......|++.+.+.+.
T Consensus        10 yifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalm   89 (215)
T KOG0097|consen   10 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   89 (215)
T ss_pred             heEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeE
Confidence            67899999999999999999999999988889999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++.+..+.++..|+...+....++.-+++++||.|+...+.+..++.++++.+.+..++++|+++|.++++.|-.-.
T Consensus        90 vyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~a  169 (215)
T KOG0097|consen   90 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETA  169 (215)
T ss_pred             EEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHH
Confidence            99999999999999999988888888888999999999999999999999999999999999999999999999998888


Q ss_pred             HHHHHhhhcCcCCC----------CCCCCccccCCCCCCCCCCccC
Q 043946          162 ADIKNRMASQPAMN----------NARPPTVQIKGQPVNQKASCCS  197 (198)
Q Consensus       162 ~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~cc~  197 (198)
                      +.+.+.....+...          ...|....+...+..++-+|-|
T Consensus       170 kkiyqniqdgsldlnaaesgvq~k~~~p~~~~l~se~~~~kd~c~c  215 (215)
T KOG0097|consen  170 KKIYQNIQDGSLDLNAAESGVQHKPSQPSRTSLSSEATGAKDQCSC  215 (215)
T ss_pred             HHHHHhhhcCcccccchhccCcCCCCCCCccccccCCCCccccCCC
Confidence            77776555432221          1233344456677777888866

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.3e-34  Score=191.95  Aligned_cols=195  Identities=39%  Similarity=0.734  Sum_probs=165.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC---------CeEEEEEEEeCCCcccccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD---------GKTVKLQIWDTAGQERFRTITSS   71 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~g~~~~~~~~~~   71 (198)
                      ||.||.+.+|.+|+|||||+.++.++++....+++.++++..+.+...         +..+.+++|||+|++++.++...
T Consensus         7 dylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTA   86 (219)
T KOG0081|consen    7 DYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTA   86 (219)
T ss_pred             HHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHH
Confidence            578999999999999999999999999999999999998877766542         35578999999999999999999


Q ss_pred             cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC-CCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC
Q 043946           72 YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE-NVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS  150 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~  150 (198)
                      |++++=+++++||++++.||.++..|+.++..+... +.-+++++||+|+.+.+.++.+++..++.++++||+++||-+|
T Consensus        87 FfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg  166 (219)
T KOG0081|consen   87 FFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTG  166 (219)
T ss_pred             HHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccC
Confidence            999999999999999999999999999999877663 4557888899999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHhhhcCcCCCCC-----CCCccccCCCCCCCCCCc
Q 043946          151 LNVEQAFMAMTADIKNRMASQPAMNNA-----RPPTVQIKGQPVNQKASC  195 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~c  195 (198)
                      .|+++..+.|...++++...-+....-     +..+-...+.++..++.|
T Consensus       167 ~Nv~kave~LldlvM~Rie~~v~~s~~p~~~~~~~~g~~~~e~~~~~~~c  216 (219)
T KOG0081|consen  167 TNVEKAVELLLDLVMKRIEQCVEKSEIPLLVTRSNCGHLDGEEPCERKNC  216 (219)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHhhcccchhhhccccccCCCCCChhhhcc
Confidence            999999999999999887764333221     111223445555555555

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=4.7e-32  Score=191.13  Aligned_cols=165  Identities=43%  Similarity=0.759  Sum_probs=144.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+..++..+++++|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            58999999999999999999998887777777777777777888888889999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~~~~  158 (198)
                      |++++.++..+..|...+.....    .+.|+++|+||+|+..+.....++...+.+..+ .+++++|+++|.|++++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            99999999988888877655433    368999999999997655566788888888887 7999999999999999999


Q ss_pred             HHHHHHHHhh
Q 043946          159 AMTADIKNRM  168 (198)
Q Consensus       159 ~l~~~~~~~~  168 (198)
                      +|.+.+.+..
T Consensus       161 ~i~~~~~~~~  170 (172)
T cd01862         161 TIARKALEQE  170 (172)
T ss_pred             HHHHHHHhcc
Confidence            9999888753

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=4.6e-32  Score=189.86  Aligned_cols=160  Identities=34%  Similarity=0.626  Sum_probs=138.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC--CCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +||+++|++|||||||+++|...  .+...+.++.+.++....+... +..+.+.+||+||.+.+..++..++.++|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999854  6777888888777766666664 56689999999999988888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|+++++++..+..|+..+.... .+.|+++|+||+|+.+...+..++...+...++++++++|++++.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            9999999999999999998887664 468999999999997766667767777777788899999999999999999999


Q ss_pred             HHHH
Q 043946          161 TADI  164 (198)
Q Consensus       161 ~~~~  164 (198)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04101         160 ARAF  163 (164)
T ss_pred             HHHh
Confidence            8764

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=3.5e-32  Score=201.34  Aligned_cols=161  Identities=24%  Similarity=0.420  Sum_probs=139.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+++|+.+.+...+.++.+ +.....+.+++..+.+.|||++|.+.+..++..++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999888877777775 555677788888899999999999988888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh---------cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-hCCcEEEEeccCCCCH
Q 043946           84 DVTDQESFNNVKQWLNEIDRY---------ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-IGIPFMETSAKDSLNV  153 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~---------~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~S~~~~~~i  153 (198)
                      |++++++|..+..|+..+...         ...+.|+++|+||+|+.+.+.+..+++.+++.. .++.++++||++|.|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999999999999998888654         224689999999999976566777787777654 3578999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIK  165 (198)
Q Consensus       154 ~~~~~~l~~~~~  165 (198)
                      +++|++|.+...
T Consensus       160 ~elf~~L~~~~~  171 (247)
T cd04143         160 DEMFRALFSLAK  171 (247)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998664

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=4.4e-32  Score=190.89  Aligned_cols=162  Identities=22%  Similarity=0.332  Sum_probs=138.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ..+||+++|.+|||||||+++|.++.+. ..+.++.+..+....+..++..+.+.+||++|.+.+..++..++.++|+++
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~l   82 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVAC   82 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEE
Confidence            4789999999999999999999998887 778888877777677888888889999999999998888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|+|++++.++..+..|+..+..  ..+.|+++|+||+|+.+.......+..++++.+++ .++++||++|.|++++|+.
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~  160 (169)
T cd01892          83 LVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTK  160 (169)
T ss_pred             EEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHH
Confidence            99999999999988888876532  23689999999999965544434455677777777 4799999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |.+.+.
T Consensus       161 l~~~~~  166 (169)
T cd01892         161 LATAAQ  166 (169)
T ss_pred             HHHHhh
Confidence            998775

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=1.4e-31  Score=186.87  Aligned_cols=159  Identities=55%  Similarity=0.928  Sum_probs=140.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+.....++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            68999999999999999999998877777788777777777778887889999999999998888899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |++++.++..+..|+..+..... .+.|+++|+||+|+.. .....++...++...+++++++|+++|.|++++|+++.+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~  159 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVE  159 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHH
Confidence            99999999999999988877643 5789999999999973 345677888888888999999999999999999999887


Q ss_pred             H
Q 043946          163 D  163 (198)
Q Consensus       163 ~  163 (198)
                      .
T Consensus       160 ~  160 (161)
T cd01863         160 K  160 (161)
T ss_pred             h
Confidence            5

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=100.00  E-value=8.8e-32  Score=190.23  Aligned_cols=159  Identities=35%  Similarity=0.668  Sum_probs=137.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEEC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDV   85 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~   85 (198)
                      |+|+|++|||||||+++|..+.+...+.++....+ ...+..++..+.+.+||+||++.+..++..++..+|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            68999999999999999999988877777765444 35667788888999999999999988999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           86 TDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        86 ~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      ++++++..+. .|+..+.... .+.|+++|+||+|+....            .+..++..++++..++ +++++||++|.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            9999999886 5888887654 479999999999986522            2667778889999986 89999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADIKN  166 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~  166 (198)
                      |++++|+.|.+.+.+
T Consensus       159 ~v~~lf~~l~~~~~~  173 (174)
T smart00174      159 GVREVFEEAIRAALN  173 (174)
T ss_pred             CHHHHHHHHHHHhcC
Confidence            999999999988753

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd04114 Rab30 Rab30 subfamily

Probab=100.00  E-value=2.4e-31  Score=187.07  Aligned_cols=163  Identities=50%  Similarity=0.885  Sum_probs=143.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.++|+++|++|||||||+++|..+.+...+.++.+.+.....+.+.+..+.+.+||+||++.+...+..++..+|++++
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~   85 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALIL   85 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            36899999999999999999999877776777777777777788888888899999999999888888889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+......+.|+++++||+|+.+.+.+..+....+.+.....++++|+++|.|++++|++|.
T Consensus        86 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~  165 (169)
T cd04114          86 TYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLA  165 (169)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999888777666799999999999987666666666777777778899999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       166 ~~~  168 (169)
T cd04114         166 CRL  168 (169)
T ss_pred             HHh
Confidence            764

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=1.2e-31  Score=192.28  Aligned_cols=158  Identities=30%  Similarity=0.490  Sum_probs=128.5

Q ss_pred             eeEEEEEcCCCCcHHHHHH-HHhcC-----CCCCCCccccee-eeEEEE--------EEECCeEEEEEEEeCCCcccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLL-RFADD-----SYLDSYISTIGV-DFKIRT--------VEQDGKTVKLQIWDTAGQERFRT   67 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~-~l~~~-----~~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~g~~~~~~   67 (198)
                      .+||+++|..|||||||+. ++.++     .+...+.|+.+. +.....        ..+++..+.+.+|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4899999999999999995 55543     234556677642 222111        24678889999999999875  2


Q ss_pred             cccccccCccEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCC-------------------CCcCC
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD-------------------KKVVS  127 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~-------------------~~~~~  127 (198)
                      ....+++++|++|+|||++++.++..+. .|+..+.... .+.|+++|+||+|+.+                   .+.+.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4566899999999999999999999997 5988887664 4689999999999864                   35678


Q ss_pred             HHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          128 YETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      .++++++++.++++|+++||++|.|++++|+.+.+.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999998763

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=7.2e-32  Score=189.17  Aligned_cols=160  Identities=34%  Similarity=0.551  Sum_probs=135.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-ccccccccccCccEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-FRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d~~i~v~   83 (198)
                      ||+++|++|||||||+++++.+.+...+.++..... ...+.+++..+.+.+||+||.+. .......++..+|++|+|+
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            689999999999999999998877666666654333 45567788888999999999885 3445677889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC-CCHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYA--SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS-LNVEQAFMAM  160 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~--~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~-~~i~~~~~~l  160 (198)
                      |++++.++..+..|+..+....  ..+.|+++|+||+|+.+.+.+..++...+++..+++|+++|+++| .|++++|++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            9999999999999998887764  346999999999999766677788888899888999999999999 5999999999


Q ss_pred             HHHHH
Q 043946          161 TADIK  165 (198)
Q Consensus       161 ~~~~~  165 (198)
                      .+.+.
T Consensus       160 ~~~~~  164 (165)
T cd04146         160 CREVR  164 (165)
T ss_pred             HHHHh
Confidence            88654

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=2.6e-31  Score=186.88  Aligned_cols=161  Identities=37%  Similarity=0.660  Sum_probs=140.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+++|.++.+...+.++.+.. ....+..++..+.+.+||+||++.+..++..++..++++++|+
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            689999999999999999999888877777776543 3466778888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+++++++..+..|...+.... ..+.|+++++||.|+...+....++...+++.++ ++++++||+++.|++++|++|.
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999999988886643 3479999999999997766667777778888887 7999999999999999999998


Q ss_pred             HHHH
Q 043946          162 ADIK  165 (198)
Q Consensus       162 ~~~~  165 (198)
                      ..+.
T Consensus       161 ~~~~  164 (168)
T cd04177         161 RQII  164 (168)
T ss_pred             HHHh
Confidence            7764

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd04148 RGK RGK subfamily

Probab=100.00  E-value=2.6e-31  Score=194.29  Aligned_cols=164  Identities=30%  Similarity=0.427  Sum_probs=137.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccccccccc-CccEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR-GAHGIII   81 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-~~d~~i~   81 (198)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.+.....+.+++....+.+||++|.+.  .....++. .+|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            58999999999999999999877775 55556655466677788888889999999999872  23344556 8999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|++|
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l  158 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGI  158 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999999999988876542 478999999999997777777777888888888999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.....
T Consensus       159 ~~~~~~~~~  167 (221)
T cd04148         159 VRQIRLRRD  167 (221)
T ss_pred             HHHHHhhhc
Confidence            998875443

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd00154 Rab Rab family

Probab=100.00  E-value=2e-31  Score=184.99  Aligned_cols=158  Identities=63%  Similarity=1.022  Sum_probs=143.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.+.+.....+..++....+.+||+||+..+...+..++.++|++++|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999888777888888888888888888889999999999988888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+++++++..+..|+..+......+.|+++++||+|+........+++..++...+.+++++|++++.|++++|++|.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999999999988887656799999999999975566678888888888889999999999999999999986

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=2.5e-31  Score=184.95  Aligned_cols=153  Identities=25%  Similarity=0.449  Sum_probs=128.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||++++..+.+.+.+.++ ...+ ...+.+++..+.+.+||++|.+.     ..++..+|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            58999999999999999999988776655444 2233 46678888888999999999864     34667899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCC--CCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD--KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~--~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |++++++|..+..|+..+..... .+.|+++|+||.|+..  .+.+..++.+++++.. ++.|+++||++|.||+++|++
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999999999998877653 5689999999999853  4567778888888776 489999999999999999999


Q ss_pred             HHHH
Q 043946          160 MTAD  163 (198)
Q Consensus       160 l~~~  163 (198)
                      +.+.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            8754

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04135 Tc10 TC10 subfamily

Probab=100.00  E-value=8.8e-31  Score=185.09  Aligned_cols=159  Identities=35%  Similarity=0.596  Sum_probs=135.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|+|||||+++|..+.+...+.++... .....+.+++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceee-eeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            58999999999999999999998887777666543 33446777888888999999999999989999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      |++++.++..+. .|...+... ..+.|+++++||+|+.+.            ..+..+++..+++..+. +++++||++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  158 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALT  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCc
Confidence            999999998885 577777655 567999999999998543            24556778888888886 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADI  164 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~  164 (198)
                      |.|++++|+.+.+.+
T Consensus       159 ~~gi~~~f~~~~~~~  173 (174)
T cd04135         159 QKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998765

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=8.3e-31  Score=185.15  Aligned_cols=157  Identities=33%  Similarity=0.565  Sum_probs=134.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +|++++|++|+|||||++++..+.+...+.++.. +.....+.+++..+.+.+||+||++.+..++..++..+|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            6899999999999999999998888777777653 444456778888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      |++++.++..+. .|+..+.... .+.|+++++||+|+..            .+.+..+++..+++..+. .++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999885 6887776543 4689999999999863            345667788889998887 899999999


Q ss_pred             CCCHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTA  162 (198)
Q Consensus       150 ~~~i~~~~~~l~~  162 (198)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999998763

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.98  E-value=7.7e-31  Score=189.10  Aligned_cols=167  Identities=29%  Similarity=0.458  Sum_probs=136.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|.+|||||||+++|+...+...+.++.. +.....+.+.+..+.+.+||++|+..+..++..++..+|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999888776666654 3455667788877899999999999988888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCC-CCcCCHHHHHHHHH-HhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD-KKVVSYETAKAFAD-EIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ++++.++..+..|+..+..... .++|+++|+||+|+.. ...+..++..+... ..+++++++||++|.|++++|++|.
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999887776654 4799999999999865 34444444444333 4567899999999999999999999


Q ss_pred             HHHHHhhhcCc
Q 043946          162 ADIKNRMASQP  172 (198)
Q Consensus       162 ~~~~~~~~~~~  172 (198)
                      +.+.......+
T Consensus       160 ~~~~~~~~~~~  170 (198)
T cd04147         160 RQANLPYNLSP  170 (198)
T ss_pred             HHhhcccccch
Confidence            87764333333

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.98  E-value=1.6e-30  Score=181.88  Aligned_cols=162  Identities=42%  Similarity=0.698  Sum_probs=139.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|....+...+.++... ........++..+.+.+||+||++.+...+..++..+|++++|+
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchh-hEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            58999999999999999999988877666666543 33455677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |++++.++..+..|+..+..... .+.|+++|+||+|+........++...+...++++++++|+++|.|++++|++|.+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  159 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHH
Confidence            99999999999999888877643 47999999999999764455677777888888899999999999999999999988


Q ss_pred             HHHH
Q 043946          163 DIKN  166 (198)
Q Consensus       163 ~~~~  166 (198)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04139         160 EIRQ  163 (164)
T ss_pred             HHHh
Confidence            7753

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.98  E-value=8.3e-33  Score=178.45  Aligned_cols=189  Identities=43%  Similarity=0.839  Sum_probs=161.1

Q ss_pred             EEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEEC
Q 043946            7 LLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDV   85 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~   85 (198)
                      +++|.+++|||+|+-++..+.+ .....++.++++..+.+..++.++++++|||+|++++.+....|++.+|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            3689999999999988876655 346678889999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946           86 TDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus        86 ~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      .+..||++.+.|+.++.++....+.+.+++||+|+..++.+..++.+++++.+++|++++|+++|.|++-.|..|.+.+.
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHH
Confidence            99999999999999999998888889999999999888888889999999999999999999999999999999999988


Q ss_pred             HhhhcCcCCCCCCCCccccCCCCCCCCCCcc
Q 043946          166 NRMASQPAMNNARPPTVQIKGQPVNQKASCC  196 (198)
Q Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc  196 (198)
                      +..... .+..+-+.++.......+.-..||
T Consensus       161 k~~~~~-~~~~~~~~~~~v~~~~k~eia~cc  190 (192)
T KOG0083|consen  161 KLKMGA-PPEGEFADHDSVADEGKGEIARCC  190 (192)
T ss_pred             HhccCC-CCCCccccchhHHhcCCCcccccc
Confidence            644332 223334444444444444445676

>cd00876 Ras Ras family

Probab=99.98  E-value=1.6e-30  Score=181.10  Aligned_cols=158  Identities=42%  Similarity=0.733  Sum_probs=138.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|++|||||||+++|.+..+...+.++.. +.....+..++..+.+.+||+||.+.+...+..++..+|++++|+|
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            689999999999999999998777667666665 4555667777777899999999999888888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      +++++++..+..|+..+..... .+.|+++++||+|+........+++..++..++.+++++|++++.|++++|++|.+.
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            9999999999998888877654 579999999999998766677888888988888999999999999999999999875

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=9.5e-30  Score=180.81  Aligned_cols=164  Identities=37%  Similarity=0.596  Sum_probs=139.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      .||+++|.+|||||||+++|....+...+.++..... ...+..++..+.+.+||+||++.+...+..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            5899999999999999999998877666666654333 455667777788999999999998888889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |.++..++..+..|+..+.... ..+.|+++++||+|+...+....++...+++.++.+++++|++++.|+.++|++|.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  160 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIE  160 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999999877776543 356899999999999766666666777788888889999999999999999999999


Q ss_pred             HHHHhh
Q 043946          163 DIKNRM  168 (198)
Q Consensus       163 ~~~~~~  168 (198)
                      .+....
T Consensus       161 ~~~~~~  166 (180)
T cd04137         161 EIEKVE  166 (180)
T ss_pred             HHHHhc
Confidence            887543

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=1.3e-29  Score=181.15  Aligned_cols=161  Identities=36%  Similarity=0.606  Sum_probs=133.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      .||+|+|++|+|||||+++|..+.+.+.+.++....+ ...+.+++....+.+||++|++.+......++..+|+++++|
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            5899999999999999999997777666666654333 345667777788999999999888777777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCC----------CCcCCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD----------KKVVSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      |+++++++..+. .|+..+..... +.|+++|+||+|+.+          .+.+..++...+++..+. .|+++||++|.
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999999999986 58888876544 699999999999854          234456777888888885 89999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADIKN  166 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~  166 (198)
                      |++++|+++.+.+..
T Consensus       160 ~v~~~f~~l~~~~~~  174 (187)
T cd04129         160 GVDDVFEAATRAALL  174 (187)
T ss_pred             CHHHHHHHHHHHHhc
Confidence            999999999987764

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=4.8e-30  Score=182.29  Aligned_cols=159  Identities=21%  Similarity=0.372  Sum_probs=122.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.++||||||+++|..+.+. .+.++.+.+.  ..+...+  +.+.+||+||++.+..+|..+++++|++||
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~--~~~~~~~--~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNV--ETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeE--EEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4689999999999999999999876664 4556665443  3344444  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-----CcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-----IPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~  155 (198)
                      |||+++++++..+..++..+... ...+.|+++++||+|+.+.  ...+++.+......     ..++++||++|.|+++
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e  168 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYE  168 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEEEeccCCCCCCHHH
Confidence            99999999988887766555322 2246899999999998654  34444443332221     1356899999999999


Q ss_pred             HHHHHHHHHHHh
Q 043946          156 AFMAMTADIKNR  167 (198)
Q Consensus       156 ~~~~l~~~~~~~  167 (198)
                      +|+||.+.+.++
T Consensus       169 ~~~~l~~~~~~~  180 (181)
T PLN00223        169 GLDWLSNNIANK  180 (181)
T ss_pred             HHHHHHHHHhhc
Confidence            999999887753

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=2.6e-29  Score=177.76  Aligned_cols=159  Identities=34%  Similarity=0.648  Sum_probs=132.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      .||+++|++|||||||+++|....+...+.++.+.... ..+.+++..+.+.+||++|++.+...+..++.++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            58999999999999999999998887777777664443 45677888889999999999998888888999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      |+++++++..+. .|...+.... .+.|+++|+||+|+...            ..+..++.+++++..+. .++++||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            999999998885 4777776543 47899999999998642            12345666777777764 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADI  164 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~  164 (198)
                      |.|++++|++|.+.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998654

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=9.5e-30  Score=181.24  Aligned_cols=164  Identities=23%  Similarity=0.409  Sum_probs=128.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEE-CCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQ-DGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      .+||+++|.+|||||||++++....+... .++.+.+.....+.. ++..+.+.+||++|.+.+..++..+++.+|++++
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            58999999999999999999998776543 565555554444443 3355889999999999888899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH--h----CCcEEEEeccCCCCHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADE--I----GIPFMETSAKDSLNVE  154 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~--~----~~~~~~~S~~~~~~i~  154 (198)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...+++..+...  .    +++++++||++|.|++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~  159 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQ  159 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHH
Confidence            999999998888888877665432 246899999999998643  334444444321  1    2458899999999999


Q ss_pred             HHHHHHHHHHHHhhh
Q 043946          155 QAFMAMTADIKNRMA  169 (198)
Q Consensus       155 ~~~~~l~~~~~~~~~  169 (198)
                      ++|++|.+.+.+.++
T Consensus       160 ~l~~~l~~~l~~~~~  174 (183)
T cd04152         160 EGLEKLYEMILKRRK  174 (183)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999876444

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.97  E-value=1.6e-29  Score=180.31  Aligned_cols=167  Identities=38%  Similarity=0.624  Sum_probs=153.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|+|||+|..++....+.+.+.|+++ +.+.+.+.+++..+.+.|+|++|++.+..+...++..+|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            468999999999999999999999999999999998 5566788888999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      ||+++++.||..+..++..+.+... ...|+++|+||+|+...+.++.++...++..++++|+|+||+.+.+++++|..|
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L  160 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYEL  160 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHH
Confidence            9999999999999999988855444 457999999999999888999999999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.....
T Consensus       161 ~r~~~~~~~  169 (196)
T KOG0395|consen  161 VREIRLPRE  169 (196)
T ss_pred             HHHHHhhhc
Confidence            998887333

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=1.1e-29  Score=178.68  Aligned_cols=155  Identities=20%  Similarity=0.398  Sum_probs=123.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|.++||||||+++|....+. .+.++.+....  .+...+  +.+.+||+||+..+...+..++..+|+++||+|
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~--~~~~~~--~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVE--TVEYKN--LKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCceeEE--EEEECC--EEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            6899999999999999999987654 35566554442  344443  789999999999888889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC------CcEEEEeccCCCCHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG------IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~S~~~~~~i~~~~  157 (198)
                      +++++++..+..|+..+.... ..+.|+++|+||+|+.+.  +..+++.+++...+      ..++++||++|.|++++|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f  153 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA--LSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGL  153 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC--CCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHH
Confidence            999999999988887775432 245899999999998643  45666666554322      257899999999999999


Q ss_pred             HHHHHHHHH
Q 043946          158 MAMTADIKN  166 (198)
Q Consensus       158 ~~l~~~~~~  166 (198)
                      +||.+.+.+
T Consensus       154 ~~l~~~~~~  162 (169)
T cd04158         154 DWLSRQLVA  162 (169)
T ss_pred             HHHHHHHhh
Confidence            999887765

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=6.9e-30  Score=179.54  Aligned_cols=153  Identities=23%  Similarity=0.403  Sum_probs=120.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+. .+.++.+.+..  .+...  .+.+.+||++|++.+...+..++..+|++|||
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v   83 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   83 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEEE
Confidence            579999999999999999999876654 35566654443  33333  48899999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~~  156 (198)
                      ||++++.++..+..|+..+... ...+.|+++|+||+|+.+.  ...+++...+..     ....++++||++|.|++++
T Consensus        84 ~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~  161 (168)
T cd04149          84 VDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  161 (168)
T ss_pred             EeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHH
Confidence            9999999998887776655432 2246899999999998643  355666655432     1236899999999999999


Q ss_pred             HHHHHH
Q 043946          157 FMAMTA  162 (198)
Q Consensus       157 ~~~l~~  162 (198)
                      |+||.+
T Consensus       162 ~~~l~~  167 (168)
T cd04149         162 LTWLSS  167 (168)
T ss_pred             HHHHhc
Confidence            999864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=4.7e-29  Score=175.65  Aligned_cols=157  Identities=37%  Similarity=0.656  Sum_probs=130.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.+..+...+.++.. +.....+..++..+.+.+||+||++.+......++..+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            6899999999999999999999887666666654 334455667788899999999999988888888889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC-----------cCCHHHHHHHHHHhCC-cEEEEeccCC
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK-----------VVSYETAKAFADEIGI-PFMETSAKDS  150 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~S~~~~  150 (198)
                      |++++.++.... .|+..+..... +.|+++|+||+|+....           .+..++..+++..++. +++++|+++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCP-NVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            999999887664 47776665543 79999999999987544           2346677788888887 9999999999


Q ss_pred             CCHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTA  162 (198)
Q Consensus       151 ~~i~~~~~~l~~  162 (198)
                      .|++++|++|.+
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999999875

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=1.9e-29  Score=178.46  Aligned_cols=157  Identities=21%  Similarity=0.373  Sum_probs=121.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+. .+.++.+.+..  .+....  +.+.+||+||++.+..++..++..+|++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTYKN--ISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEECC--EEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            3689999999999999999999876654 45566654443  344443  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----CCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----GIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~S~~~~~~i~~  155 (198)
                      |||+++++++.....|+..+... ...+.|+++|+||.|+.+..  ..+++.......     .+.++++||++|.|+++
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  164 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYE  164 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHH
Confidence            99999999998888877666432 22468999999999986532  333433322211     23467899999999999


Q ss_pred             HHHHHHHHHH
Q 043946          156 AFMAMTADIK  165 (198)
Q Consensus       156 ~~~~l~~~~~  165 (198)
                      +|+||.+.+.
T Consensus       165 ~~~~l~~~~~  174 (175)
T smart00177      165 GLTWLSNNLK  174 (175)
T ss_pred             HHHHHHHHhc
Confidence            9999987653

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=2.1e-30  Score=181.47  Aligned_cols=153  Identities=22%  Similarity=0.336  Sum_probs=122.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      .|+++|++|||||||+++|....+...+.++.+...  ..  ++...+.+.+||++|++.+..++..+++++|++|+|||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~~--i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   76 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--VA--IPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD   76 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--EE--EeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence            489999999999999999998877777777776432  22  33445889999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH----HHHHHHHHHhCCcEEEEeccC------CCCHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY----ETAKAFADEIGIPFMETSAKD------SLNVE  154 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~S~~~------~~~i~  154 (198)
                      ++++.++..+..|+..+.... .+.|+++|+||.|+...+.+..    ..+..++++.++.++++||++      ++|+.
T Consensus        77 ~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~  155 (164)
T cd04162          77 SADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVK  155 (164)
T ss_pred             CCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHH
Confidence            999999988888877775433 5799999999999976542211    123444555567889998888      99999


Q ss_pred             HHHHHHHH
Q 043946          155 QAFMAMTA  162 (198)
Q Consensus       155 ~~~~~l~~  162 (198)
                      ++|+.++.
T Consensus       156 ~~~~~~~~  163 (164)
T cd04162         156 DLLSQLIN  163 (164)
T ss_pred             HHHHHHhc
Confidence            99998864

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=5.1e-29  Score=177.23  Aligned_cols=159  Identities=24%  Similarity=0.397  Sum_probs=121.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||++++..+.+.. +.++.+.+..  .+...+  +.+.+||+||++.+..++..+++.+|++|+|
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEYKN--LKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            5899999999999999999998766653 5566554433  344443  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----CCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----GIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~S~~~~~~i~~~  156 (198)
                      +|+++++++..+..++..+... ...+.|+++|+||.|+.+..  ..+++.......     .+.++++||++|.|++++
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~  169 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEG  169 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHH
Confidence            9999999998887766655322 22468999999999986432  333332222111     124678999999999999


Q ss_pred             HHHHHHHHHHhh
Q 043946          157 FMAMTADIKNRM  168 (198)
Q Consensus       157 ~~~l~~~~~~~~  168 (198)
                      |+||.+.+.+.+
T Consensus       170 ~~~l~~~i~~~~  181 (182)
T PTZ00133        170 LDWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHHhc
Confidence            999998887643

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=3.9e-29  Score=174.24  Aligned_cols=152  Identities=22%  Similarity=0.380  Sum_probs=116.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||++++..+.+. .+.|+.+....  .+...  .+.+.+||+||++.+...+..+++++|++||||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999877665 45666654432  33443  488999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~~~  157 (198)
                      |++++.++..+..|+..+... ...+.|+++++||+|+.+..  ..+++......     ..+.++++||++|.|++++|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            999999998888766655332 22458999999999986432  23333222211     12357899999999999999


Q ss_pred             HHHHH
Q 043946          158 MAMTA  162 (198)
Q Consensus       158 ~~l~~  162 (198)
                      +||.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99864

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd01893 Miro1 Miro1 subfamily

Probab=99.97  E-value=6.5e-29  Score=174.34  Aligned_cols=160  Identities=27%  Similarity=0.402  Sum_probs=123.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|.+|||||||+++|..+.+...+.++..  .........+..+.+.+||+||.+.+...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP--EITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc--ceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            4899999999999999999999887655433222  22233445566789999999999877777777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHHHhC--CcEEEEeccCCCCHHHHHH
Q 043946           84 DVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETAKAFADEIG--IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        84 d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~~~~--~~~~~~S~~~~~~i~~~~~  158 (198)
                      |++++.++..+. .|+..+..... +.|+++|+||+|+.+.....  .+++..+...+.  .+++++||+++.|++++|+
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~-~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999875 58887776544 79999999999997654321  233333333333  3799999999999999999


Q ss_pred             HHHHHHHH
Q 043946          159 AMTADIKN  166 (198)
Q Consensus       159 ~l~~~~~~  166 (198)
                      .+.+.+..
T Consensus       158 ~~~~~~~~  165 (166)
T cd01893         158 YAQKAVLH  165 (166)
T ss_pred             HHHHHhcC
Confidence            99887653

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd04154 Arl2 Arl2 subfamily

Probab=99.97  E-value=4.5e-29  Score=176.28  Aligned_cols=154  Identities=25%  Similarity=0.395  Sum_probs=121.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|++|||||||+++|.+..+ ..+.++.+  +....+..++  +.+.+||+||++.+...+..++..+|++++
T Consensus        13 ~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g--~~~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~   87 (173)
T cd04154          13 REMRILILGLDNAGKTTILKKLLGEDI-DTISPTLG--FQIKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALIW   87 (173)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccc--cceEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            468999999999999999999997644 34455554  3334455554  789999999999888888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++.....|+..+... ...+.|+++|+||+|+.+..  ..+++..+...     .+++++++||++|.|+++
T Consensus        88 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  165 (173)
T cd04154          88 VVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLLQ  165 (173)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHHH
Confidence            99999999998887777666432 23578999999999996543  44555555432     346899999999999999


Q ss_pred             HHHHHHH
Q 043946          156 AFMAMTA  162 (198)
Q Consensus       156 ~~~~l~~  162 (198)
                      +|+||.+
T Consensus       166 l~~~l~~  172 (173)
T cd04154         166 GIDWLVD  172 (173)
T ss_pred             HHHHHhc
Confidence            9999864

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=2.1e-28  Score=178.54  Aligned_cols=163  Identities=33%  Similarity=0.610  Sum_probs=141.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|++|||||||+++++.+.+...+.++.+.+.....+..++..+.+.+||++|++.+...+..++..++++++
T Consensus         8 ~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~   87 (215)
T PTZ00132          8 PEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAII   87 (215)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEE
Confidence            46899999999999999999998888888888998888887888778888999999999999988888889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+.... .+.|+++++||+|+.+. ....+. ..++...++.++++|+++|.|++++|.+|.
T Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~~-~~~~~~-~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia  164 (215)
T PTZ00132         88 MFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKDR-QVKARQ-ITFHRKKNLQYYDISAKSNYNFEKPFLWLA  164 (215)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCccc-cCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999999998887664 46899999999998643 233333 456677788999999999999999999999


Q ss_pred             HHHHHh
Q 043946          162 ADIKNR  167 (198)
Q Consensus       162 ~~~~~~  167 (198)
                      +.+...
T Consensus       165 ~~l~~~  170 (215)
T PTZ00132        165 RRLTND  170 (215)
T ss_pred             HHHhhc
Confidence            988753

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.96  E-value=3.8e-29  Score=174.98  Aligned_cols=164  Identities=35%  Similarity=0.611  Sum_probs=147.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +.+|++|+|..++|||+|+-.+..+.++..+.|+.. +.....+.++ +..+.+.+|||+|+++|+.++...+.++|+++
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            468999999999999999999999999999999998 6666778885 99999999999999999999989999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEe
Q 043946           81 IVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETS  146 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S  146 (198)
                      ++|++.+++|+.++. .|+.++.+++ ++.|+++|++|.|+.++            ..+..++..+++++.|+ .|+++|
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcS  160 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECS  160 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeeh
Confidence            999999999999875 4999998887 47999999999999742            25678889999999994 899999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHh
Q 043946          147 AKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      |+++.|+.++|+...+.....
T Consensus       161 a~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  161 ALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             hhhhCCcHHHHHHHHHHHhcc
Confidence            999999999999999998863

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.96  E-value=1.2e-30  Score=176.59  Aligned_cols=169  Identities=30%  Similarity=0.575  Sum_probs=158.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |..+|++|+|..++||||+|++++.+-+...+..++++++....+.+.+.++.+.+||++|+++++.+.+.|++.+.+.+
T Consensus        18 e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~v   97 (246)
T KOG4252|consen   18 ERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASV   97 (246)
T ss_pred             hhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceE
Confidence            46799999999999999999999999888899999999998888888888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +||+.+|+.||+....|++.+..... ++|.++|-||+|+.+...+...+++.++++++..++.+|++...|+.++|.+|
T Consensus        98 LVFSTTDr~SFea~~~w~~kv~~e~~-~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YL  176 (246)
T KOG4252|consen   98 LVFSTTDRYSFEATLEWYNKVQKETE-RIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYL  176 (246)
T ss_pred             EEEecccHHHHHHHHHHHHHHHHHhc-cCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHH
Confidence            99999999999999999999987765 69999999999999988899999999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.+++++
T Consensus       177 aeK~~q~~kq  186 (246)
T KOG4252|consen  177 AEKLTQQKKQ  186 (246)
T ss_pred             HHHHHHHHHH
Confidence            9999887776

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=1.9e-28  Score=171.06  Aligned_cols=152  Identities=20%  Similarity=0.352  Sum_probs=116.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC-CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS-YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +|+++|++|||||||+++|.+.. ....+.++.+...  ..+...  .+.+.+||+||.+.+..++..++..+|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~--~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV--ESFEKG--NLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce--EEEEEC--CEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            58999999999999999999864 3445566665433  233333  478999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh---cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRY---ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~---~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |++++.++.....|+..+...   ...+.|+++|+||+|+.+..  ..+++.....     .....++++||++|.|+++
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~  154 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDE  154 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHH
Confidence            999999888888777766443   22479999999999986532  2333332221     1123589999999999999


Q ss_pred             HHHHHHH
Q 043946          156 AFMAMTA  162 (198)
Q Consensus       156 ~~~~l~~  162 (198)
                      +|+||.+
T Consensus       155 ~~~~l~~  161 (162)
T cd04157         155 GVQWLQA  161 (162)
T ss_pred             HHHHHhc
Confidence            9999864

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=4.5e-28  Score=174.10  Aligned_cols=148  Identities=25%  Similarity=0.423  Sum_probs=125.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-----CeEEEEEEEeCCCcccccccccccccCccE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-----GKTVKLQIWDTAGQERFRTITSSYYRGAHG   78 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   78 (198)
                      +||+++|.++||||||+++|..+.+.+.+.++.+.+.....+.++     +..+.+.+||++|++.+..++..+++.+|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999888888888877776666663     466899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-------------------CCCCcEEEEEeCCCCCCCCcCCHH----HHHHHH
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYA-------------------SENVNKLLVGNKCDLTDKKVVSYE----TAKAFA  135 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-------------------~~~~p~iiv~nK~D~~~~~~~~~~----~~~~~~  135 (198)
                      +|+|||++++.++..+..|+..+....                   ..+.|+++|+||.|+.+.+.+..+    ....++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            999999999999999999999886532                   246899999999999765544443    244578


Q ss_pred             HHhCCcEEEEeccCCC
Q 043946          136 DEIGIPFMETSAKDSL  151 (198)
Q Consensus       136 ~~~~~~~~~~S~~~~~  151 (198)
                      .+.+++.++.+..++.
T Consensus       161 ~~~~~~~i~~~c~~~~  176 (202)
T cd04102         161 EQGNAEEINLNCTNGR  176 (202)
T ss_pred             HhcCCceEEEecCCcc
Confidence            8899998888877554

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.96  E-value=8.2e-29  Score=173.96  Aligned_cols=151  Identities=23%  Similarity=0.325  Sum_probs=118.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      +|+++|++|||||||+++|.+. +...+.++.+..  ...+...+  +.+.+||+||++.+..++..++.++|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLDK--YEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEECC--EEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 555666776643  34455554  789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHH------HHHHhC--CcEEEEeccCC-----
Q 043946           85 VTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKA------FADEIG--IPFMETSAKDS-----  150 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~------~~~~~~--~~~~~~S~~~~-----  150 (198)
                      ++++.++..+..|+..+..... .+.|+++|+||.|+.+..  ...++.+      +++..+  ..++++||++|     
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~  153 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL--LGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKI  153 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC--CHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcc
Confidence            9999999988888877755422 478999999999997644  2222222      222222  46788999998     


Q ss_pred             -CCHHHHHHHHHH
Q 043946          151 -LNVEQAFMAMTA  162 (198)
Q Consensus       151 -~~i~~~~~~l~~  162 (198)
                       .|+.+.|+||..
T Consensus       154 ~~g~~~~~~wl~~  166 (167)
T cd04161         154 DPSIVEGLRWLLA  166 (167)
T ss_pred             ccCHHHHHHHHhc
Confidence             899999999964

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.96  E-value=1.3e-27  Score=168.88  Aligned_cols=156  Identities=33%  Similarity=0.509  Sum_probs=123.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|++||||||++++|..+... ...||.+  .....+...+  +.+.+||.+|+..+...|..++..+|++||
T Consensus        13 ~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g--~~~~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~iIf   87 (175)
T PF00025_consen   13 KEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIG--FNIEEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGIIF   87 (175)
T ss_dssp             SEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESS--EEEEEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEEEE
T ss_pred             cEEEEEEECCCccchHHHHHHhhhcccc-ccCcccc--cccceeeeCc--EEEEEEeccccccccccceeeccccceeEE
Confidence            5689999999999999999999876543 3455554  4455666666  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh------CCcEEEEeccCCCCHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI------GIPFMETSAKDSLNVE  154 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~------~~~~~~~S~~~~~~i~  154 (198)
                      |+|.++.+.+.+....+..+.. ....+.|++|++||.|+.+.  ...+++.......      .+.++.+|+.+|.|+.
T Consensus        88 VvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~  165 (175)
T PF00025_consen   88 VVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVD  165 (175)
T ss_dssp             EEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHH
T ss_pred             EEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCHH
Confidence            9999998888777665555433 23357999999999998653  4556666544322      2458999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          155 QAFMAMTADI  164 (198)
Q Consensus       155 ~~~~~l~~~~  164 (198)
                      |.|+||.+.+
T Consensus       166 e~l~WL~~~~  175 (175)
T PF00025_consen  166 EGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhcC
Confidence            9999998764

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=5.8e-28  Score=170.75  Aligned_cols=153  Identities=20%  Similarity=0.329  Sum_probs=117.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|+|||||+++|..+.+.. ..++.+.+.  ..+..+.  ..+.+||+||++.+...+..++..+|++|+|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNV--EEIVYKN--IRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccce--EEEEECC--eEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            4799999999999999999998877654 455555443  3444444  7899999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      +|+++++++.....++..+... ...+.|+++++||+|+.+.  ...+++.+..     ...+++++++||++|.|++++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~  167 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEG  167 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHH
Confidence            9999998887776665555332 2246899999999998653  2334433222     123356899999999999999


Q ss_pred             HHHHHH
Q 043946          157 FMAMTA  162 (198)
Q Consensus       157 ~~~l~~  162 (198)
                      |+||.+
T Consensus       168 ~~~l~~  173 (174)
T cd04153         168 LDWIAS  173 (174)
T ss_pred             HHHHhc
Confidence            999864

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PTZ00099 rab6; Provisional

Probab=99.96  E-value=2.8e-27  Score=167.02  Aligned_cols=145  Identities=42%  Similarity=0.661  Sum_probs=128.9

Q ss_pred             CCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhc
Q 043946           26 DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA  105 (198)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~  105 (198)
                      +.+.+.+.++.+.++....+.+++..+.+.||||+|++.+..++..+++.+|++|+|||++++++|..+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            35667788999988888888899999999999999999999999999999999999999999999999999999887665


Q ss_pred             CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          106 SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       106 ~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      ..+.|+++|+||+|+.+.+.+..++...++..++..++++||++|.|++++|++|.+.+.+....
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~~  147 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDNS  147 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcccc
Confidence            56789999999999977666778888888888888999999999999999999999998764443

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.96  E-value=2e-27  Score=158.52  Aligned_cols=160  Identities=26%  Similarity=0.434  Sum_probs=128.4

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |+.++|+++|..||||||+.++|.+... +...|+.+  +..++...++  +.+.+||.+|+......|++|+..+|++|
T Consensus        14 erE~riLiLGLdNsGKTti~~kl~~~~~-~~i~pt~g--f~Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdglI   88 (185)
T KOG0073|consen   14 EREVRILILGLDNSGKTTIVKKLLGEDT-DTISPTLG--FQIKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGLI   88 (185)
T ss_pred             hheeEEEEEecCCCCchhHHHHhcCCCc-cccCCccc--eeeEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeEE
Confidence            5689999999999999999999997653 34445554  5555665666  89999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHH-HHHhcCCCCcEEEEEeCCCCCCCCcCCHH------HHHHHHHHhCCcEEEEeccCCCCH
Q 043946           81 IVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTDKKVVSYE------TAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~-~~~~~~~~~p~iiv~nK~D~~~~~~~~~~------~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ||+|.+|+..++.....+.. +...+..+.|+++++||.|++..  ...+      .++++++....+++.||+.+|+++
T Consensus        89 wvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~--l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l  166 (185)
T KOG0073|consen   89 WVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA--LSLEEISKALDLEELAKSHHWRLVKCSAVTGEDL  166 (185)
T ss_pred             EEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc--cCHHHHHHhhCHHHhccccCceEEEEeccccccH
Confidence            99999998887766554433 33444467899999999999732  2222      344555667789999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 043946          154 EQAFMAMTADIKNR  167 (198)
Q Consensus       154 ~~~~~~l~~~~~~~  167 (198)
                      .+.++||...++++
T Consensus       167 ~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  167 LEGIDWLCDDLMSR  180 (185)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999874

>cd00879 Sar1 Sar1 subfamily

Probab=99.96  E-value=1.2e-27  Score=171.39  Aligned_cols=155  Identities=25%  Similarity=0.339  Sum_probs=122.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|++|||||||+++|.+..+. .+.++.+..  ...+.+++  ..+.+||+||+..+...+..++..+|++++
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~--~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT--SEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3579999999999999999999987663 455554433  34455555  678999999999888888899999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH----------------hCCcEEE
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADE----------------IGIPFME  144 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~~~  144 (198)
                      |+|+++..++.....++..+.... ..+.|+++++||+|+..  .+..+++......                ....+++
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFM  170 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEE
Confidence            999999988887777776665432 24689999999999864  3456666665542                1246899


Q ss_pred             EeccCCCCHHHHHHHHHHH
Q 043946          145 TSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~  163 (198)
                      +||++|.|++++|+||.+.
T Consensus       171 ~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         171 CSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             eEecCCCChHHHHHHHHhh
Confidence            9999999999999999764

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.96  E-value=6.5e-28  Score=169.29  Aligned_cols=152  Identities=29%  Similarity=0.443  Sum_probs=116.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHG   78 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   78 (198)
                      +|+++|++|||||||+++|.....      ...+.++.+...  ..+.+++  ..+.+||+||++.+..++..++..+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVGN--ARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEECC--EEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            589999999999999999975322      223334444333  3444554  789999999999998888999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-------hCCcEEEEeccCC
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADE-------IGIPFMETSAKDS  150 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~S~~~~  150 (198)
                      +++|+|+++++++.....|+..+.... ..+.|+++++||+|+...  ...+++..+...       .+++++++||++|
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  154 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEG  154 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCC
Confidence            999999999888888877776665432 247899999999998653  344555444433       2357999999999


Q ss_pred             CCHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTA  162 (198)
Q Consensus       151 ~~i~~~~~~l~~  162 (198)
                      .|++++++||.+
T Consensus       155 ~gv~e~~~~l~~  166 (167)
T cd04160         155 TGVREGIEWLVE  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999864

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=6.8e-28  Score=168.04  Aligned_cols=152  Identities=25%  Similarity=0.420  Sum_probs=115.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      +|+++|++|||||||+++|....+.. ..++.+.+.  ..+..+ ..+.+.+||+||++.+...+..++..+|++|+|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            58999999999999999999887653 345554333  333333 34789999999999888888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHH------HHhCCcEEEEeccCCCCHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFA------DEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~------~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      ++++.++..+..|+..+.... ..+.|+++|+||+|+....  ..+++....      ...+++++++||++|.|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            999988888877776664432 2478999999999986432  233333222      1123468999999999999999


Q ss_pred             HHHHH
Q 043946          158 MAMTA  162 (198)
Q Consensus       158 ~~l~~  162 (198)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            99864

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04151 Arl1 Arl1 subfamily

Probab=99.96  E-value=4.2e-27  Score=163.83  Aligned_cols=151  Identities=25%  Similarity=0.375  Sum_probs=112.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|+++||||||+++|..+.+. ...++.+.+.  ..+...  ...+.+||+||.+.+..++..++..+|++|+|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCe--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            6899999999999999999876654 3345544333  233343  3789999999999998889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~-~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      ++++.++.....++..+ ......+.|+++++||+|+.+..  ...++......     .+.+++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  153 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHH
Confidence            99988877665555433 32223468999999999986542  22333222211     124699999999999999999


Q ss_pred             HHHH
Q 043946          159 AMTA  162 (198)
Q Consensus       159 ~l~~  162 (198)
                      +|.+
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9865

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.95  E-value=1.7e-27  Score=165.81  Aligned_cols=151  Identities=26%  Similarity=0.399  Sum_probs=118.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|.+|||||||++++.+... ..+.++.+.+  ...+...+  ..+.+||+||++.+...+..++..+|++++|+|
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFN--VETVEYKN--VSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcc--eEEEEECC--EEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999998763 3445555433  33444444  789999999999988889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      +++++++.....|+..+.... ..+.|+++++||+|+....  ..+++......     ..++++++|+++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999888888776665432 3578999999999987543  33344433322     235799999999999999999


Q ss_pred             HHHH
Q 043946          159 AMTA  162 (198)
Q Consensus       159 ~l~~  162 (198)
                      +|..
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            9875

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=2.5e-26  Score=172.87  Aligned_cols=178  Identities=23%  Similarity=0.455  Sum_probs=137.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC-------------eEEEEEEEeCCCccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-------------KTVKLQIWDTAGQERFRTI   68 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~i~D~~g~~~~~~~   68 (198)
                      ..+||+|+|..|||||||+++|..+.+...+.++++.++....+.+++             ..+.+.|||++|++.+..+
T Consensus        20 ~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL   99 (334)
T PLN00023         20 GQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDC   99 (334)
T ss_pred             cceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhh
Confidence            468999999999999999999999888888888988887767666642             4588999999999999999


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcC------------CCCcEEEEEeCCCCCCCC---c---CCHHH
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS------------ENVNKLLVGNKCDLTDKK---V---VSYET  130 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------------~~~p~iiv~nK~D~~~~~---~---~~~~~  130 (198)
                      +..+++++|++|+|||++++.++..+..|+..+.....            .++|++||+||+|+.+.+   .   +..++
T Consensus       100 ~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~  179 (334)
T PLN00023        100 RSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDA  179 (334)
T ss_pred             hHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHH
Confidence            99999999999999999999999999999999987631            258999999999996542   2   25788


Q ss_pred             HHHHHHHhCC-cE---E------------EEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCC
Q 043946          131 AKAFADEIGI-PF---M------------ETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP  179 (198)
Q Consensus       131 ~~~~~~~~~~-~~---~------------~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~  179 (198)
                      ++++++++++ +.   +            ...|+.+.==.|++....+.+.+++--......+.+
T Consensus       180 a~~~A~~~g~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (334)
T PLN00023        180 ARQWVEKQGLLPSSEELPLTESFPGNGGLIAAAKEARYDKEALIKFFRMLIRRRYFSDELPAPSP  244 (334)
T ss_pred             HHHHHHHcCCCccccccccccccCCCccHhhhhhhhcccHHHHHHHHHHHHHHHhhcccCCCCCC
Confidence            9999999884 11   1            122333332345666666666666655444444333

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.95  E-value=1e-26  Score=163.40  Aligned_cols=155  Identities=15%  Similarity=0.141  Sum_probs=107.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc---------ccccccC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI---------TSSYYRG   75 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~---------~~~~~~~   75 (198)
                      +|+++|.+|||||||+++|.+........+..+.+.....+..+  .+++.+|||||.......         .......
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYK--YLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEccC--ceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            79999999999999999999876543322222223333333333  378999999997431110         0011123


Q ss_pred             ccEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           76 AHGIIIVYDVTDQES--FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      .|++++|+|++++.+  +.....|+..+.... .+.|+++|+||+|+.+.....  ....+....+.+++++||++|.|+
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~gi  156 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLS--EIEEEEELEGEEVLKISTLTEEGV  156 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHH--HHHHhhhhccCceEEEEecccCCH
Confidence            689999999998754  355566777765543 368999999999996543322  244455555678999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          154 EQAFMAMTADI  164 (198)
Q Consensus       154 ~~~~~~l~~~~  164 (198)
                      +++|++|.+.+
T Consensus       157 ~~l~~~l~~~~  167 (168)
T cd01897         157 DEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.95  E-value=1.2e-26  Score=165.36  Aligned_cols=154  Identities=20%  Similarity=0.275  Sum_probs=118.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .++|+++|.+|||||||+++|.+..+. .+.++.+.+  ...+..++  +++.+||+||...+...+..++..+|++|+|
T Consensus        17 ~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~v   91 (184)
T smart00178       17 HAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPT--SEELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIVYL   91 (184)
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEE
Confidence            589999999999999999999987654 234444332  23344444  7899999999998888899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh------------CCcEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI------------GIPFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~------------~~~~~~~S~~~  149 (198)
                      +|+++++++.....++..+... ...+.|+++|+||+|+..  .++.+++.+.....            ...++++||++
T Consensus        92 vD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~  169 (184)
T smart00178       92 VDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVR  169 (184)
T ss_pred             EECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeeccc
Confidence            9999998888777776655432 224689999999999864  34556555443211            23589999999


Q ss_pred             CCCHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTAD  163 (198)
Q Consensus       150 ~~~i~~~~~~l~~~  163 (198)
                      |.|++++++||.+.
T Consensus       170 ~~g~~~~~~wl~~~  183 (184)
T smart00178      170 RMGYGEGFKWLSQY  183 (184)
T ss_pred             CCChHHHHHHHHhh
Confidence            99999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01890 LepA LepA subfamily

Probab=99.95  E-value=2.9e-26  Score=162.66  Aligned_cols=154  Identities=23%  Similarity=0.333  Sum_probs=111.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--C-----CCCCccc------ceeeeEEEE--EEE---CCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--Y-----LDSYIST------IGVDFKIRT--VEQ---DGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~-----~~~~~~~------~~~~~~~~~--~~~---~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+++|.++||||||+++|++..  +     ...+.++      .+.+.....  +.+   ++..+.+.+|||||++.+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            68999999999999999998632  1     1111111      122222222  222   5566889999999999998


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC---cEE
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI---PFM  143 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~  143 (198)
                      ..+..++..+|++|+|+|++++.+...+..|....    ..++|+++|+||+|+.+..  ..+...++++.+++   .++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            88889999999999999999876655555554322    2368999999999986432  22334455666665   389


Q ss_pred             EEeccCCCCHHHHHHHHHHHH
Q 043946          144 ETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ++||++|.|++++|++|.+.+
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhC
Confidence            999999999999999998764

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.95  E-value=5.8e-26  Score=174.34  Aligned_cols=162  Identities=18%  Similarity=0.176  Sum_probs=119.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-------ccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-------FRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~~   76 (198)
                      -.|+++|.||||||||+++|..........+.++.....-.+.+.. ...+.+||+||...       ....+...++++
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            3689999999999999999987543222233334444444455532 14689999999632       122334456789


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      +++++|+|+++.+++..+..|...+..+..  .+.|+++|+||+|+.+......+....++...+.+++++||+++.|++
T Consensus       238 ~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~  317 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLD  317 (335)
T ss_pred             CEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHH
Confidence            999999999988788888999988877643  368999999999997554333334445555667899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          155 QAFMAMTADIKN  166 (198)
Q Consensus       155 ~~~~~l~~~~~~  166 (198)
                      +++++|.+.+.+
T Consensus       318 eL~~~L~~~l~~  329 (335)
T PRK12299        318 ELLRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988765

>cd01898 Obg Obg subfamily

Probab=99.95  E-value=2.4e-26  Score=161.73  Aligned_cols=157  Identities=19%  Similarity=0.224  Sum_probs=111.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc----cccccc---cccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF----RTITSS---YYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~---~~~~~d   77 (198)
                      +|+++|.+|||||||+++|.+........+..+.......+..++. ..+.+|||||....    ..+...   .+..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~-~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG-RSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC-CeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            5899999999999999999875432111122222222223333432 47999999996321    122222   345699


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-hCCcEEEEeccCCCCH
Q 043946           78 GIIIVYDVTDQ-ESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADE-IGIPFMETSAKDSLNV  153 (198)
Q Consensus        78 ~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~S~~~~~~i  153 (198)
                      ++++|+|++++ +++..+..|.+.+.....  .+.|+++|+||+|+...... .+....+... .+.+++++|++++.|+
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi  159 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGL  159 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCH
Confidence            99999999998 788888889888876542  36899999999998654432 3444445555 3678999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          154 EQAFMAMTAD  163 (198)
Q Consensus       154 ~~~~~~l~~~  163 (198)
                      +++|++|.+.
T Consensus       160 ~~l~~~i~~~  169 (170)
T cd01898         160 DELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999999864

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.95  E-value=7.9e-26  Score=156.90  Aligned_cols=152  Identities=26%  Similarity=0.451  Sum_probs=118.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      .|+++|++|||||||+++|.+..+...+.++.+....  .+..++  +.+.+||+||++.+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR--KVTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE--EEEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            3799999999999999999998888777777765443  344444  789999999999998889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHHHHH
Q 043946           85 VTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      ++++.++.....|+..+... ...+.|+++|+||+|+.+..  ..++.....     ....++++++|+++|.|++++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  154 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGAL--SVDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLD  154 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCc--CHHHHHHHhCcccccCCceEEEEEEeccCCChHHHHH
Confidence            99988887777766655432 22468999999999986543  222222221     11235789999999999999999


Q ss_pred             HHHH
Q 043946          159 AMTA  162 (198)
Q Consensus       159 ~l~~  162 (198)
                      +|.+
T Consensus       155 ~l~~  158 (159)
T cd04159         155 WLIK  158 (159)
T ss_pred             HHhh
Confidence            9875

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.94  E-value=3e-25  Score=153.71  Aligned_cols=158  Identities=34%  Similarity=0.526  Sum_probs=124.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|+|||||++++........+.++.+.+.....+..++..+.+.+||+||+..+...+..++..++.++++
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            47999999999999999999998877777777777777777677777668899999999988888888888999999999


Q ss_pred             EECCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           83 YDVTDQ-ESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        83 ~d~~~~-~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|.... .++.... .|...+......+.|+++++||+|+.... ........+......+++++||.++.|++++|++|
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            998876 5555544 56665655544378999999999996543 22233333333345689999999999999999987


Q ss_pred             H
Q 043946          161 T  161 (198)
Q Consensus       161 ~  161 (198)
                      .
T Consensus       160 ~  160 (161)
T TIGR00231       160 E  160 (161)
T ss_pred             h
Confidence            4

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd01878 HflX HflX subfamily

Probab=99.94  E-value=6.2e-26  Score=164.30  Aligned_cols=155  Identities=19%  Similarity=0.154  Sum_probs=112.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc---------ccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF---------RTITSSY   72 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~   72 (198)
                      ..++|+|+|++|||||||++++.+........+..+.+.....+.+++. ..+.+||+||....         ... ...
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~-~~~  117 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRST-LEE  117 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHH-HHH
Confidence            3579999999999999999999987543332233333344444445442 37899999997321         111 123


Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                      +..+|++++|+|++++.++.....|...+......+.|+++|+||+|+.+....     .......+.+++++||+++.|
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~g  192 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGEG  192 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCCC
Confidence            568999999999999888877777777776665557899999999998654321     133444567899999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          153 VEQAFMAMTAD  163 (198)
Q Consensus       153 i~~~~~~l~~~  163 (198)
                      +++++++|.+.
T Consensus       193 i~~l~~~L~~~  203 (204)
T cd01878         193 LDELLEAIEEL  203 (204)
T ss_pred             HHHHHHHHHhh
Confidence            99999999765

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd04171 SelB SelB subfamily

Probab=99.94  E-value=1.6e-25  Score=156.51  Aligned_cols=152  Identities=16%  Similarity=0.192  Sum_probs=105.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC---CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +.|+++|.+|||||||+++|.+.   .+.....++.+.+.....+.+.. ...+.+|||||++.+......++..+|+++
T Consensus         1 ~~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii   79 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVL   79 (164)
T ss_pred             CEEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEE
Confidence            46899999999999999999863   23223333444444444455542 268999999999888766667788999999


Q ss_pred             EEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHHHHHHHH---hCCcEEEEeccCCCC
Q 043946           81 IVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETAKAFADE---IGIPFMETSAKDSLN  152 (198)
Q Consensus        81 ~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~~~~S~~~~~~  152 (198)
                      +|+|+++   +++...+    ..+... . ..|+++++||+|+.+...  ...+++.+....   .+.+++++|++++.|
T Consensus        80 ~V~d~~~~~~~~~~~~~----~~~~~~-~-~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  153 (164)
T cd04171          80 LVVAADEGIMPQTREHL----EILELL-G-IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEG  153 (164)
T ss_pred             EEEECCCCccHhHHHHH----HHHHHh-C-CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcC
Confidence            9999987   3332222    222222 1 249999999999965321  112344444444   357899999999999


Q ss_pred             HHHHHHHHHH
Q 043946          153 VEQAFMAMTA  162 (198)
Q Consensus       153 i~~~~~~l~~  162 (198)
                      ++++|++|.+
T Consensus       154 v~~l~~~l~~  163 (164)
T cd04171         154 IEELKEYLDE  163 (164)
T ss_pred             HHHHHHHHhh
Confidence            9999998753

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>cd04155 Arl3 Arl3 subfamily

Probab=99.94  E-value=8.7e-25  Score=154.28  Aligned_cols=151  Identities=25%  Similarity=0.383  Sum_probs=113.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|++|||||||++++.+..+. ...++.+.  ....+...+  ..+.+||++|...+...+..+++.+|++++
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~--~~~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~   87 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGF--NIKTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLIY   87 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCc--ceEEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEEE
Confidence            3589999999999999999999986543 33444443  333445555  678999999998888888889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC--------cEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI--------PFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~S~~~~~~  152 (198)
                      |+|+++..++.....++..+... ...++|+++++||+|+.+..  ..+++.   ...++        .++++||++|.|
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~~i~---~~l~~~~~~~~~~~~~~~Sa~~~~g  162 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA--PAEEIA---EALNLHDLRDRTWHIQACSAKTGEG  162 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC--CHHHHH---HHcCCcccCCCeEEEEEeECCCCCC
Confidence            99999988887776665554332 23468999999999986532  223322   22332        368999999999


Q ss_pred             HHHHHHHHHH
Q 043946          153 VEQAFMAMTA  162 (198)
Q Consensus       153 i~~~~~~l~~  162 (198)
                      ++++|+||.+
T Consensus       163 i~~~~~~l~~  172 (173)
T cd04155         163 LQEGMNWVCK  172 (173)
T ss_pred             HHHHHHHHhc
Confidence            9999999965

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.93  E-value=7.5e-25  Score=152.22  Aligned_cols=147  Identities=18%  Similarity=0.230  Sum_probs=110.3

Q ss_pred             EEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc------cccccc--cCccEE
Q 043946            8 LIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT------ITSSYY--RGAHGI   79 (198)
Q Consensus         8 v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--~~~d~~   79 (198)
                      |+|.+|||||||++++.+........++.+.+.....+.+++  ..+.+|||||.+.+..      ++..++  ..+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998765444455555556566677776  5789999999876543      244455  489999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      ++|+|+.++...   ..+...+..   .++|+++|+||+|+.+...+. .....+....+.+++++|++++.|+++++++
T Consensus        79 i~v~d~~~~~~~---~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERN---LYLTLQLLE---LGLPVVVALNMIDEAEKRGIK-IDLDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhH---HHHHHHHHH---cCCCEEEEEehhhhcccccch-hhHHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            999999886542   233333332   368999999999997654333 3345677777899999999999999999999


Q ss_pred             HHHH
Q 043946          160 MTAD  163 (198)
Q Consensus       160 l~~~  163 (198)
                      |.+.
T Consensus       152 l~~~  155 (158)
T cd01879         152 IAEL  155 (158)
T ss_pred             HHHH
Confidence            9875

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.93  E-value=1.8e-25  Score=152.86  Aligned_cols=134  Identities=25%  Similarity=0.306  Sum_probs=98.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-----cccccccccccCccEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-----RFRTITSSYYRGAHGI   79 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----~~~~~~~~~~~~~d~~   79 (198)
                      ||+++|.+|||||||+++|.+....  +.++.+       +.+.     -.+||+||..     .+..+. ..++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~-------~~~~-----~~~iDt~G~~~~~~~~~~~~~-~~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQA-------VEYN-----DGAIDTPGEYVENRRLYSALI-VTAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--ccccee-------EEEc-----CeeecCchhhhhhHHHHHHHH-HHhhcCCEE
Confidence            8999999999999999999976542  222222       1122     2689999972     233332 247899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~  158 (198)
                      |+|||++++.++.. ..|...+      ..|+++|+||+|+.+. ....++..++++..+. +++++||++|.|++++|+
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAEA-DVDIERAKELLETAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCCc-ccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHH
Confidence            99999999887644 2343321      2499999999998643 3456677777777776 799999999999999999


Q ss_pred             HHH
Q 043946          159 AMT  161 (198)
Q Consensus       159 ~l~  161 (198)
                      +|.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            874

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.93  E-value=6.4e-25  Score=150.16  Aligned_cols=157  Identities=24%  Similarity=0.432  Sum_probs=126.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .++|+++|..+|||||++.+|...+.... .||++  +.+..+.+.+  +.+.+||.+|++.+...|..|+++.+++|||
T Consensus        17 e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~ykn--~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfV   91 (181)
T KOG0070|consen   17 EMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYKN--ISFTVWDVGGQEKLRPLWKHYFQNTQGLIFV   91 (181)
T ss_pred             eEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEcc--eEEEEEecCCCcccccchhhhccCCcEEEEE
Confidence            47999999999999999999987776544 77776  4445555555  8999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-----cEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-----PFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-----~~~~~S~~~~~~i~~~  156 (198)
                      +|.+|++.+..+...+..+..... .+.|+++++||.|+++.  .+..++........+     .+..++|.+|.|+.|.
T Consensus        92 vDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a--ls~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~eg  169 (181)
T KOG0070|consen   92 VDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA--LSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEG  169 (181)
T ss_pred             EeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc--CCHHHHHhHhhhhccCCCCcEEeeccccccccHHHH
Confidence            999999998887765555544333 57999999999999765  345555544443332     4678899999999999


Q ss_pred             HHHHHHHHHH
Q 043946          157 FMAMTADIKN  166 (198)
Q Consensus       157 ~~~l~~~~~~  166 (198)
                      ++||.+.+..
T Consensus       170 l~wl~~~~~~  179 (181)
T KOG0070|consen  170 LDWLSNNLKK  179 (181)
T ss_pred             HHHHHHHHhc
Confidence            9999988765

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.93  E-value=1.2e-25  Score=153.65  Aligned_cols=148  Identities=20%  Similarity=0.277  Sum_probs=106.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc------ccccccc--cC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR------TITSSYY--RG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~--~~   75 (198)
                      |+|+++|.||||||||+|+|.+.+......|..+.+.....+...+  ..+.++|+||..+..      .....++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            6899999999999999999999876556667777777777777777  678999999954322      1223333  68


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      .|++|+|+|+++.+.-.++   ..++.+   .++|+++++||+|......+. -..+.+.+.++++++++||+++.|+++
T Consensus        79 ~D~ii~VvDa~~l~r~l~l---~~ql~e---~g~P~vvvlN~~D~a~~~g~~-id~~~Ls~~Lg~pvi~~sa~~~~g~~~  151 (156)
T PF02421_consen   79 PDLIIVVVDATNLERNLYL---TLQLLE---LGIPVVVVLNKMDEAERKGIE-IDAEKLSERLGVPVIPVSARTGEGIDE  151 (156)
T ss_dssp             SSEEEEEEEGGGHHHHHHH---HHHHHH---TTSSEEEEEETHHHHHHTTEE-E-HHHHHHHHTS-EEEEBTTTTBTHHH
T ss_pred             CCEEEEECCCCCHHHHHHH---HHHHHH---cCCCEEEEEeCHHHHHHcCCE-ECHHHHHHHhCCCEEEEEeCCCcCHHH
Confidence            9999999999875433222   222333   279999999999986544332 235667778899999999999999999


Q ss_pred             HHHHH
Q 043946          156 AFMAM  160 (198)
Q Consensus       156 ~~~~l  160 (198)
                      +++.|
T Consensus       152 L~~~I  156 (156)
T PF02421_consen  152 LKDAI  156 (156)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            99875

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.93  E-value=9.1e-25  Score=153.33  Aligned_cols=157  Identities=17%  Similarity=0.146  Sum_probs=108.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      .|+|+|.+|+|||||+++|....+.....++.+.+.....+... +....+.+|||||++.+...+...+..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999877655444444434433444443 12468999999999888888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC-HHHHHHHHH----Hh--CCcEEEEeccCCCCHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS-YETAKAFAD----EI--GIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~-~~~~~~~~~----~~--~~~~~~~S~~~~~~i~~~  156 (198)
                      |+++........ .+..+..   .+.|+++|+||+|+....... .+....+..    ..  ..+++++|+++|.|++++
T Consensus        82 d~~~~~~~~~~~-~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQTIE-AIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHHHH-HHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            998743211111 1222222   368999999999986432100 111211111    11  257999999999999999


Q ss_pred             HHHHHHHHH
Q 043946          157 FMAMTADIK  165 (198)
Q Consensus       157 ~~~l~~~~~  165 (198)
                      +++|.+...
T Consensus       158 ~~~l~~~~~  166 (168)
T cd01887         158 LEAILLLAE  166 (168)
T ss_pred             HHHHHHhhh
Confidence            999987654

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.93  E-value=8e-24  Score=154.81  Aligned_cols=167  Identities=40%  Similarity=0.624  Sum_probs=136.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|+.|||||||+++|....+...+.++.+..+........+..+++.+||++|++.+..++..++..+++++++
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999999999988888888777777776666578999999999999999999999999999999


Q ss_pred             EECCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHh---CCcEEEEe
Q 043946           83 YDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEI---GIPFMETS  146 (198)
Q Consensus        83 ~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~---~~~~~~~S  146 (198)
                      +|..+ ..+......|...+......+.|+++++||+|+....            ..............   ...++++|
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  164 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS  164 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEee
Confidence            99999 5556666789988888776678999999999997653            22222222222222   23489999


Q ss_pred             cc--CCCCHHHHHHHHHHHHHHhhh
Q 043946          147 AK--DSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       147 ~~--~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      ++  ++.++.++|..+.+.+.+...
T Consensus       165 ~~~~~~~~v~~~~~~~~~~~~~~~~  189 (219)
T COG1100         165 AKSLTGPNVNELFKELLRKLLEEIE  189 (219)
T ss_pred             cccCCCcCHHHHHHHHHHHHHHhhh
Confidence            99  999999999999999975443

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.93  E-value=4.8e-24  Score=146.43  Aligned_cols=153  Identities=55%  Similarity=0.901  Sum_probs=120.2

Q ss_pred             EEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECC
Q 043946            8 LIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus         8 v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                      |+|++|+|||||++++.+... .....++. .+.....+...+....+.+||+||...+...+..++..+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998766 44444554 6666677776677789999999998888777788899999999999999


Q ss_pred             ChhhHHHHHHH-HHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHH-HHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           87 DQESFNNVKQW-LNEIDRYASENVNKLLVGNKCDLTDKKVVSYET-AKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        87 ~~~s~~~~~~~-~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ++.++..+..| ..........+.|+++++||+|+.......... ..........+++++|+.++.|+++++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            99888888776 233334445679999999999987654332222 3344555568999999999999999999985

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.93  E-value=2.7e-24  Score=165.04  Aligned_cols=159  Identities=18%  Similarity=0.199  Sum_probs=114.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-------ccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-------FRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~~   76 (198)
                      -.|+++|.||||||||+++|...+......+.++.....-.+.+.+ ...+.+||+||...       ....+...+.++
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            4689999999999999999997543222222233333334444443 26789999999642       112223345679


Q ss_pred             cEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC
Q 043946           77 HGIIIVYDVTDQ---ESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL  151 (198)
Q Consensus        77 d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~  151 (198)
                      +++++|+|+++.   +++..+..|.+++..+..  .+.|+++|+||+|+.+... ..+..+.+.+..+.+++++||+++.
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~  315 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGE  315 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCc
Confidence            999999999986   677888888888766532  4689999999999965432 2334445566667889999999999


Q ss_pred             CHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADI  164 (198)
Q Consensus       152 ~i~~~~~~l~~~~  164 (198)
                      |+++++++|.+.+
T Consensus       316 GI~eL~~~I~~~l  328 (329)
T TIGR02729       316 GLDELLYALAELL  328 (329)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998754

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.92  E-value=2.1e-24  Score=173.77  Aligned_cols=179  Identities=21%  Similarity=0.231  Sum_probs=124.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   73 (198)
                      ..+|+|+|.+|||||||+|+|++.... ....++.+.+.....+.+.+  ..+.+|||||.+.        +......++
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~  115 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVAM  115 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHHH
Confidence            468999999999999999999986532 23344444445555555666  5688999999752        233345578


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~  152 (198)
                      ..+|++|||+|++++.+... ..+...+..   .+.|+++|+||+|+....   .+..+.+  ..++ ..+++||++|.|
T Consensus       116 ~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~g  186 (472)
T PRK03003        116 RTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRG  186 (472)
T ss_pred             HhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCC
Confidence            89999999999998755432 334444433   368999999999985421   1222222  2343 457999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          153 VEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++++|++|.+.+.+....  .........+.+-++++.+|++
T Consensus       187 i~eL~~~i~~~l~~~~~~--~~~~~~~~kI~iiG~~nvGKSS  226 (472)
T PRK03003        187 VGDLLDAVLAALPEVPRV--GSASGGPRRVALVGKPNVGKSS  226 (472)
T ss_pred             cHHHHHHHHhhccccccc--ccccccceEEEEECCCCCCHHH
Confidence            999999999887552211  1112356788899999999986

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.92  E-value=4.2e-24  Score=165.28  Aligned_cols=153  Identities=22%  Similarity=0.222  Sum_probs=112.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-c--------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-R--------FRTITSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-~--------~~~~~~~~~   73 (198)
                      .++|+++|.+|||||||+|+|.+........+..+.+.....+.+++. ..+.+|||+|.. .        +.. ....+
T Consensus       189 ~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~-tle~~  266 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRA-TLEEV  266 (351)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHH-HHHHH
Confidence            479999999999999999999987644333344445555666666432 578999999972 1        211 12247


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      .++|++++|+|++++.+...+..|...+......+.|+++|+||+|+....     ...... ....+++++||++|.|+
T Consensus       267 ~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~-----~v~~~~-~~~~~~i~iSAktg~GI  340 (351)
T TIGR03156       267 READLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEP-----RIERLE-EGYPEAVFVSAKTGEGL  340 (351)
T ss_pred             HhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChH-----hHHHHH-hCCCCEEEEEccCCCCH
Confidence            789999999999998887777777777766654578999999999986432     122111 12246899999999999


Q ss_pred             HHHHHHHHHH
Q 043946          154 EQAFMAMTAD  163 (198)
Q Consensus       154 ~~~~~~l~~~  163 (198)
                      ++++++|.+.
T Consensus       341 ~eL~~~I~~~  350 (351)
T TIGR03156       341 DLLLEAIAER  350 (351)
T ss_pred             HHHHHHHHhh
Confidence            9999998764

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>PRK04213 GTP-binding protein; Provisional

Probab=99.92  E-value=9e-25  Score=157.87  Aligned_cols=154  Identities=16%  Similarity=0.188  Sum_probs=102.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc-----------cccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ-----------ERFRTITS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-----------~~~~~~~~   70 (198)
                      ..++|+++|.+|||||||+++|.+..+.....++.+  .....+...    .+.+||+||.           +.+...+.
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIV   81 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHH
Confidence            357999999999999999999998766544444433  333333333    5899999993           34444444


Q ss_pred             ccc----cCccEEEEEEECCChhhH-H---------HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH
Q 043946           71 SYY----RGAHGIIIVYDVTDQESF-N---------NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD  136 (198)
Q Consensus        71 ~~~----~~~d~~i~v~d~~~~~s~-~---------~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~  136 (198)
                      .++    ..++++++|+|..+...+ .         .-......+   ...++|+++|+||+|+.+..   .+...++..
T Consensus        82 ~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~p~iiv~NK~Dl~~~~---~~~~~~~~~  155 (201)
T PRK04213         82 RYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFL---RELGIPPIVAVNKMDKIKNR---DEVLDEIAE  155 (201)
T ss_pred             HHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHH---HHcCCCeEEEEECccccCcH---HHHHHHHHH
Confidence            443    346788999998653211 0         001112222   22478999999999986543   334455555


Q ss_pred             HhCC---------cEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          137 EIGI---------PFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       137 ~~~~---------~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      .+++         +++++||++| |++++|++|.+.+.+..
T Consensus       156 ~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        156 RLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             HhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCcc
Confidence            5554         4899999999 99999999998875433

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.92  E-value=3.2e-24  Score=154.12  Aligned_cols=158  Identities=16%  Similarity=0.226  Sum_probs=107.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc--CCCCCCC------------cccceeeeEEEEEEECCeEEEEEEEeCCCccccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD--DSYLDSY------------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   70 (198)
                      +|+++|.+++|||||+++|+.  ..+...+            ..+.+.+.......+......+.+||+||++.+...+.
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~   83 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVE   83 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHH
Confidence            799999999999999999986  4443332            11223333333333444457899999999999988899


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHH-------hCCcE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFADE-------IGIPF  142 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~-------~~~~~  142 (198)
                      .++..+|++++|+|+++.. ......++..+.   ..+.|+++++||+|+.+.... ..+++..+...       .++++
T Consensus        84 ~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~---~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  159 (194)
T cd01891          84 RVLSMVDGVLLLVDASEGP-MPQTRFVLKKAL---ELGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPV  159 (194)
T ss_pred             HHHHhcCEEEEEEECCCCc-cHHHHHHHHHHH---HcCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCE
Confidence            9999999999999998742 222233333332   236899999999999653211 12334444322       35789


Q ss_pred             EEEeccCCCCHHHH------HHHHHHHHHH
Q 043946          143 METSAKDSLNVEQA------FMAMTADIKN  166 (198)
Q Consensus       143 ~~~S~~~~~~i~~~------~~~l~~~~~~  166 (198)
                      +++||++|.|+.++      +++|.+.+.+
T Consensus       160 v~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~  189 (194)
T cd01891         160 LYASAKNGWASLNLEDPSEDLEPLFDTIIE  189 (194)
T ss_pred             EEeehhccccccccccchhhHHHHHHHHHh
Confidence            99999999887554      4555555554

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.92  E-value=2.6e-24  Score=152.08  Aligned_cols=154  Identities=23%  Similarity=0.258  Sum_probs=106.1

Q ss_pred             EEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccc----ccc---ccccccCccEE
Q 043946            8 LIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERF----RTI---TSSYYRGAHGI   79 (198)
Q Consensus         8 v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~----~~~---~~~~~~~~d~~   79 (198)
                      ++|++|||||||+++|.+........+..+.+.....+.+. +  ..+.+||+||....    ..+   ....+..+|++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~i   78 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDG--ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAI   78 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCC--CeEEEEeccccchhhhcCCCccHHHHHHHhccCEE
Confidence            58999999999999999875421222222233333344444 4  67899999996321    112   23356789999


Q ss_pred             EEEEECCCh------hhHHHHHHHHHHHHHhcC-------CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           80 IIVYDVTDQ------ESFNNVKQWLNEIDRYAS-------ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        80 i~v~d~~~~------~s~~~~~~~~~~~~~~~~-------~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      ++|+|+.++      .++..+..|...+.....       .+.|+++|+||+|+..................+..++++|
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  158 (176)
T cd01881          79 LHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPIS  158 (176)
T ss_pred             EEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEe
Confidence            999999987      467777777766654432       3689999999999975443222212233334456899999


Q ss_pred             ccCCCCHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~  163 (198)
                      ++++.|++++++++.+.
T Consensus       159 a~~~~gl~~l~~~l~~~  175 (176)
T cd01881         159 AKTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhhcCHHHHHHHHHhh
Confidence            99999999999998764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.92  E-value=2.5e-23  Score=144.19  Aligned_cols=146  Identities=21%  Similarity=0.236  Sum_probs=105.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------cccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYYR   74 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   74 (198)
                      ++|+++|++|+|||||++++.+.... ....++.+.......+...+  ..+.+||+||.......        ....+.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            58999999999999999999976532 12233333344444555554  67899999997654321        234667


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      ++|++++|+|++++.+......+..      ..+.|+++|+||+|+.+....       .....+.+++++||+++.|++
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~  146 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLD  146 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHH
Confidence            8999999999998776555444332      236899999999998754432       333445689999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          155 QAFMAMTADI  164 (198)
Q Consensus       155 ~~~~~l~~~~  164 (198)
                      +++++|.+.+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999988754

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.91  E-value=2.9e-24  Score=172.91  Aligned_cols=162  Identities=21%  Similarity=0.204  Sum_probs=112.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----------cccccc-
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTIT-   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~-   69 (198)
                      ..++|+++|.+|||||||+|+|++... .....++.+.+.....+..++  ..+.+|||||..          .+..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~--~~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG--KTWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC--EEEEEEECCCccccccccchHHHHHHHHH
Confidence            358999999999999999999998654 234445555556556666776  456899999953          222221 


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHH-HHHhCCcEEEEe
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAF-ADEIGIPFMETS  146 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~-~~~~~~~~~~~S  146 (198)
                      ..+++.+|++|+|+|++++.++..+. ++..+.   ..+.|+++|+||+|+.+....  ..+++... .....++++++|
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~---~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~S  363 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVI---EAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNIS  363 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHH---HcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEE
Confidence            23578999999999999987766553 333332   247899999999999643211  01122221 112236899999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHhhh
Q 043946          147 AKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      |++|.|++++|+.+.+.+.+...
T Consensus       364 Ak~g~gv~~lf~~i~~~~~~~~~  386 (472)
T PRK03003        364 AKTGRAVDKLVPALETALESWDT  386 (472)
T ss_pred             CCCCCCHHHHHHHHHHHHHHhcc
Confidence            99999999999999887764443

>TIGR00436 era GTP-binding protein Era

Probab=99.91  E-value=1.3e-23  Score=158.16  Aligned_cols=153  Identities=18%  Similarity=0.112  Sum_probs=103.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc--------ccccccccC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR--------TITSSYYRG   75 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~~   75 (198)
                      +|+++|.+|||||||+|+|++..... ...+.++.... ..+...+. .++.+|||||.....        .....++..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i-~~i~~~~~-~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRI-SGIHTTGA-SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcE-EEEEEcCC-cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999876532 12222222222 22322222 579999999965321        112346789


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~  154 (198)
                      +|++++|+|+++..+..  ..+...+..   .+.|+++|+||+|+.+... ..+....+....+. +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999866543  333443433   3689999999999864321 12334444444444 78999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          155 QAFMAMTADIK  165 (198)
Q Consensus       155 ~~~~~l~~~~~  165 (198)
                      +++++|.+.+.
T Consensus       154 ~L~~~l~~~l~  164 (270)
T TIGR00436       154 FLAAFIEVHLP  164 (270)
T ss_pred             HHHHHHHHhCC
Confidence            99999988764

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=3.7e-23  Score=164.64  Aligned_cols=163  Identities=17%  Similarity=0.191  Sum_probs=114.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-------ccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-------FRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~~   76 (198)
                      ..|+|+|.||||||||+++|.+.+......+.++.....-.+...+  ..+.+||+||...       ........+.++
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhiera  237 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIERC  237 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHhc
Confidence            4799999999999999999997544322334444445555555555  6799999999531       111123356789


Q ss_pred             cEEEEEEECCC----hhhHHHHHHHHHHHHHhc-----------CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc
Q 043946           77 HGIIIVYDVTD----QESFNNVKQWLNEIDRYA-----------SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP  141 (198)
Q Consensus        77 d~~i~v~d~~~----~~s~~~~~~~~~~~~~~~-----------~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~  141 (198)
                      |++|+|+|+++    ++++..+..+...+..+.           ..+.|+++|+||+|+++.... .+.........+.+
T Consensus       238 dvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~g~~  316 (500)
T PRK12296        238 AVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEARGWP  316 (500)
T ss_pred             CEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHcCCe
Confidence            99999999975    345555666665555443           136899999999999754322 23333344455789


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          142 FMETSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       142 ~~~~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      ++++||+++.|+++++++|.+.+.+.+.
T Consensus       317 Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        317 VFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            9999999999999999999999877544

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.91  E-value=3.1e-23  Score=169.31  Aligned_cols=153  Identities=18%  Similarity=0.194  Sum_probs=114.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +..+|+++|++++|||||+++|....+.....++.+.+.....+.+.+. ..+.+|||||++.|..++...+..+|++|+
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaIL  164 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVVL  164 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEEE
Confidence            4578999999999999999999987776665566666666666666442 278999999999999999889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC---------CcEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG---------IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~S~~~~~~  152 (198)
                      |+|+++........    .+......++|+++++||+|+.+.   ..+.+...+...+         .+++++||++|.|
T Consensus       165 VVda~dgv~~qT~e----~i~~~~~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeG  237 (587)
T TIGR00487       165 VVAADDGVMPQTIE----AISHAKAANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDG  237 (587)
T ss_pred             EEECCCCCCHhHHH----HHHHHHHcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCC
Confidence            99998743212111    122222347899999999998643   2344444333322         4689999999999


Q ss_pred             HHHHHHHHHH
Q 043946          153 VEQAFMAMTA  162 (198)
Q Consensus       153 i~~~~~~l~~  162 (198)
                      ++++|++|..
T Consensus       238 I~eLl~~I~~  247 (587)
T TIGR00487       238 IDELLDMILL  247 (587)
T ss_pred             hHHHHHhhhh
Confidence            9999999864

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=8.3e-23  Score=160.68  Aligned_cols=159  Identities=18%  Similarity=0.212  Sum_probs=114.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc----cccc---ccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER----FRTI---TSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~---~~~~~~~~d   77 (198)
                      .|+++|.||||||||+++|.+.+..-...+.++.....-.+.+.. ...+.+||+||...    ...+   +...+.+++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            799999999999999999997553222223333333333344431 25799999999632    1112   233456799


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           78 GIIIVYDVTDQ---ESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        78 ~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                      ++++|+|+++.   +++..+..|.+.+..+..  .++|++||+||+|+..    ..+.+..+.+.++.+++++||+++.|
T Consensus       239 llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeG  314 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQG  314 (424)
T ss_pred             EEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCC
Confidence            99999999864   677777888888876543  3689999999999843    23445566666667899999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 043946          153 VEQAFMAMTADIKNRM  168 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~  168 (198)
                      +++++++|.+.+.+..
T Consensus       315 I~eL~~~L~~~l~~~~  330 (424)
T PRK12297        315 LDELLYAVAELLEETP  330 (424)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999998886643

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.91  E-value=5.5e-23  Score=163.31  Aligned_cols=153  Identities=24%  Similarity=0.268  Sum_probs=115.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------cccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSY   72 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   72 (198)
                      ..++|+++|++|||||||+|+|.+... .....++.+.+.....+.+++  ..+.+|||||...+...        ...+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~~  279 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFKA  279 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHHH
Confidence            357999999999999999999997542 223345555666666777777  56799999997654321        2357


Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                      +..+|++++|+|++++.++...  |+..+.   ..+.|+++|+||+|+...      ....+++.++.+++.+|+++ .|
T Consensus       280 ~~~aD~il~V~D~s~~~s~~~~--~l~~~~---~~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~g  347 (442)
T TIGR00450       280 IKQADLVIYVLDASQPLTKDDF--LIIDLN---KSKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LK  347 (442)
T ss_pred             HhhCCEEEEEEECCCCCChhHH--HHHHHh---hCCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CC
Confidence            7899999999999988776554  554442   236899999999998543      12344556678899999998 69


Q ss_pred             HHHHHHHHHHHHHHhh
Q 043946          153 VEQAFMAMTADIKNRM  168 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~  168 (198)
                      ++++|+.|.+.+.+..
T Consensus       348 I~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       348 IKALVDLLTQKINAFY  363 (442)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999887654

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.91  E-value=3e-23  Score=137.71  Aligned_cols=114  Identities=34%  Similarity=0.618  Sum_probs=87.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCC--CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYL--DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ||+|+|++|||||||+++|.+....  .......+.+..............+.+||++|.+.+...+..++..+|++|+|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999987765  22233344455555666777777799999999998888777789999999999


Q ss_pred             EECCChhhHHHHHHH---HHHHHHhcCCCCcEEEEEeCCC
Q 043946           83 YDVTDQESFNNVKQW---LNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~---~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      ||++++.++..+.++   +..+... ..+.|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~-~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKR-DKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHH-SSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHcc-CCCCCEEEEEeccC
Confidence            999999999887555   4444443 34599999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=4.9e-23  Score=134.22  Aligned_cols=156  Identities=24%  Similarity=0.448  Sum_probs=123.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .++|+.+|..++||||++..|..++.. ...||.+  +...++.+.+  .++.+||.+|++..+.+|.+|+....++|||
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvG--FnvetVtykN--~kfNvwdvGGqd~iRplWrhYy~gtqglIFV   91 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   91 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCCc-ccccccc--eeEEEEEeee--eEEeeeeccCchhhhHHHHhhccCCceEEEE
Confidence            579999999999999999999876543 5556655  5556666666  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-----cEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-----PFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~-~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-----~~~~~S~~~~~~i~~~  156 (198)
                      +|..+.+.++++...+ ..+....-.+.|++|.+||.|++..  .+.+++..+.+.-.+     -+.++++.+|.|+.|-
T Consensus        92 ~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A--~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eg  169 (180)
T KOG0071|consen   92 VDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDA--MKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEG  169 (180)
T ss_pred             EeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccc--cCHHHHHHHhccccccCCccEeeccccccchhHHHH
Confidence            9999987777665533 3332222246899999999999765  467777766554333     3789999999999999


Q ss_pred             HHHHHHHHH
Q 043946          157 FMAMTADIK  165 (198)
Q Consensus       157 ~~~l~~~~~  165 (198)
                      |.||.+.+.
T Consensus       170 lswlsnn~~  178 (180)
T KOG0071|consen  170 LSWLSNNLK  178 (180)
T ss_pred             HHHHHhhcc
Confidence            999988754

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.91  E-value=6.1e-23  Score=146.58  Aligned_cols=154  Identities=18%  Similarity=0.190  Sum_probs=108.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcc----------------cceeeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYIS----------------TIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI   68 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   68 (198)
                      +|+|+|.+|+|||||+++|.+.........                +.+.......+...+  ..+.+||+||...+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPD--RRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCC--EEEEEEeCCCcHHHHHH
Confidence            589999999999999999987655433211                112222233333343  68999999999888888


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHH---------
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADE---------  137 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~---------  137 (198)
                      +..++..+|++++|+|+.++..... ..++..+..   .+.|+++++||+|+......  ..+.+.+..+.         
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEE  154 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhh
Confidence            8888999999999999987654322 233333332   47899999999999753221  12233333333         


Q ss_pred             -----hCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          138 -----IGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       138 -----~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                           ...+++++|+++|.|+++++++|.+.+
T Consensus       155 ~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         155 GTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             hcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                 246899999999999999999998875

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>cd01889 SelB_euk SelB subfamily

Probab=99.91  E-value=2.6e-23  Score=149.22  Aligned_cols=158  Identities=16%  Similarity=0.134  Sum_probs=102.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC----CCCC---CCcccceeeeEEEEEEEC------------CeEEEEEEEeCCCccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD----SYLD---SYISTIGVDFKIRTVEQD------------GKTVKLQIWDTAGQER   64 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~----~~~~---~~~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~g~~~   64 (198)
                      ++|+++|.+++|||||+++|...    .+..   ...++.+.......+.+.            +....+.+||+||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999862    1111   112223333333333333            2347899999999876


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHH------
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFAD------  136 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~------  136 (198)
                      +..........+|++++|+|+.+.........+.  +...  .+.|+++++||+|+......  ..+++.+...      
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            5443444567789999999998754332222222  1121  25799999999998643211  1222322211      


Q ss_pred             -HhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          137 -EIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       137 -~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                       ..+++++++||++|.|+++++++|.+.+.
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence             13568999999999999999999987764

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.91  E-value=4.8e-23  Score=164.48  Aligned_cols=148  Identities=22%  Similarity=0.263  Sum_probs=111.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~   73 (198)
                      .++|+++|.+|||||||+|+|.+... .....++.+.+.....+.+++  ..+.+|||||.......        ...++
T Consensus       215 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~  292 (449)
T PRK05291        215 GLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREAI  292 (449)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHHH
Confidence            47999999999999999999998653 223345555566666677776  67899999997654321        23367


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|++++.++.....|..      ..+.|+++|+||+|+.......        ...+.+++++|+++|.|+
T Consensus       293 ~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI  358 (449)
T PRK05291        293 EEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGI  358 (449)
T ss_pred             HhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCH
Confidence            88999999999998877654443332      3368999999999996533211        234568999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIKN  166 (198)
Q Consensus       154 ~~~~~~l~~~~~~  166 (198)
                      ++++++|.+.+..
T Consensus       359 ~~L~~~L~~~l~~  371 (449)
T PRK05291        359 DELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988764

>cd01894 EngA1 EngA1 subfamily

Probab=99.90  E-value=3.9e-23  Score=143.32  Aligned_cols=146  Identities=19%  Similarity=0.140  Sum_probs=100.2

Q ss_pred             EEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc--------cccccccCcc
Q 043946            7 LLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT--------ITSSYYRGAH   77 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~~d   77 (198)
                      +++|.+|||||||+++|.+.... ....+..+.+.........+  ..+.+||+||......        .+...+..+|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            47999999999999999975421 12223333334444455555  6799999999876433        3345678899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHH
Q 043946           78 GIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQA  156 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~  156 (198)
                      ++++|+|+.++.+.... .....+..   .+.|+++|+||+|+.+....     .......+. +++++|++++.|++++
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            99999999875433221 12222222   25899999999998654321     223334555 7899999999999999


Q ss_pred             HHHHHHH
Q 043946          157 FMAMTAD  163 (198)
Q Consensus       157 ~~~l~~~  163 (198)
                      |++|.+.
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9999865

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.90  E-value=4.1e-23  Score=165.10  Aligned_cols=159  Identities=24%  Similarity=0.231  Sum_probs=109.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-----------cc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-----------TS   70 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------~~   70 (198)
                      .++|+++|.+|+|||||+|+|++... .....++.+.+.....+..++  ..+.+|||||.......           ..
T Consensus       172 ~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~e~~~~~~~~  249 (429)
T TIGR03594       172 PIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG--KKYLLIDTAGIRRKGKVTEGVEKYSVLRTL  249 (429)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECC--cEEEEEECCCccccccchhhHHHHHHHHHH
Confidence            58999999999999999999997542 223334444444445555555  47899999997543321           12


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-HHh----CCcEEEE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFA-DEI----GIPFMET  145 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-~~~----~~~~~~~  145 (198)
                      ..++.+|++|+|+|++++.+..... +...+   ...+.|+++|+||+|+.+.. ...++..... ..+    .++++++
T Consensus       250 ~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~---~~~~~~iiiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~vi~~  324 (429)
T TIGR03594       250 KAIERADVVLLVLDATEGITEQDLR-IAGLI---LEAGKALVIVVNKWDLVKDE-KTREEFKKELRRKLPFLDFAPIVFI  324 (429)
T ss_pred             HHHHhCCEEEEEEECCCCccHHHHH-HHHHH---HHcCCcEEEEEECcccCCCH-HHHHHHHHHHHHhcccCCCCceEEE
Confidence            3678999999999999876654432 22222   22368999999999997221 1122222222 222    3689999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHhh
Q 043946          146 SAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      ||++|.|++++|+++.+.+.+..
T Consensus       325 SA~~g~~v~~l~~~i~~~~~~~~  347 (429)
T TIGR03594       325 SALTGQGVDKLLDAIDEVYENAN  347 (429)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999998776543

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.90  E-value=2.7e-22  Score=132.66  Aligned_cols=171  Identities=24%  Similarity=0.380  Sum_probs=138.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccc-cccccccccCccE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERF-RTITSSYYRGAHG   78 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~-~~~~~~~~~~~d~   78 (198)
                      ..||+|+|..++|||++++.|+...  ......+|+. +++...++.+ +-.-.+.++||.|.... ..+-.+|++-+|+
T Consensus         9 ~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    9 VCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             ceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            4689999999999999999998533  2334556655 4444555443 44457999999997766 5677889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +++||+..|++||+.+.-....+.+... ..+|+++++||.|+.+.+++..+.+..|++.-.+.++++++.+...+-|.|
T Consensus        88 fVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf  167 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPF  167 (198)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHH
Confidence            9999999999999988777666666544 459999999999999888899999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCcCC
Q 043946          158 MAMTADIKNRMASQPAM  174 (198)
Q Consensus       158 ~~l~~~~~~~~~~~~~~  174 (198)
                      .+|...+.+...+..-+
T Consensus       168 ~~l~~rl~~pqskS~Fp  184 (198)
T KOG3883|consen  168 TYLASRLHQPQSKSTFP  184 (198)
T ss_pred             HHHHHhccCCcccccCc
Confidence            99999887655544333

>PRK11058 GTPase HflX; Provisional

Probab=99.90  E-value=1.1e-22  Score=160.85  Aligned_cols=157  Identities=22%  Similarity=0.228  Sum_probs=112.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc--cccc------cccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--RTIT------SSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--~~~~------~~~~~~   75 (198)
                      .+|+++|.+|||||||+|+|.+........++.+.+.....+.+.+. ..+.+|||+|....  ...+      ...+..
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~  276 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQ  276 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhc
Confidence            58999999999999999999986544333344445555555656542 26789999997331  1112      234688


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc-EEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP-FMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S~~~~~~i~  154 (198)
                      +|++++|+|++++.+...+..|...+......+.|+++|+||+|+.....   .....  ...+.+ ++.+||++|.|++
T Consensus       277 ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~~--~~~~~~~~v~ISAktG~GId  351 (426)
T PRK11058        277 ATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRIDR--DEENKPIRVWLSAQTGAGIP  351 (426)
T ss_pred             CCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHHH--HhcCCCceEEEeCCCCCCHH
Confidence            99999999999988877776666666665555789999999999864211   11111  123444 5889999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          155 QAFMAMTADIKN  166 (198)
Q Consensus       155 ~~~~~l~~~~~~  166 (198)
                      +++++|.+.+..
T Consensus       352 eL~e~I~~~l~~  363 (426)
T PRK11058        352 LLFQALTERLSG  363 (426)
T ss_pred             HHHHHHHHHhhh
Confidence            999999988854

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=1.9e-22  Score=155.89  Aligned_cols=155  Identities=20%  Similarity=0.238  Sum_probs=105.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC-CcccceeeeEEEEEEECCeEEEEEEEeCCCccc-ccccc-------ccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS-YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-FRTIT-------SSY   72 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~-------~~~   72 (198)
                      ..++|+++|.+|||||||+|+|++..+... ..+..+.......+..++  .++.+|||||... +..+.       ...
T Consensus        51 k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~~  128 (339)
T PRK15494         51 KTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWSS  128 (339)
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHHH
Confidence            356999999999999999999998765321 112222233334455555  5789999999743 22211       124


Q ss_pred             ccCccEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKD  149 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~  149 (198)
                      +..+|+++||+|..+  ++.... .|+..+..   .+.|+++|+||+|+.+.   ...++.+.+....  ..++++||++
T Consensus       129 l~~aDvil~VvD~~~--s~~~~~~~il~~l~~---~~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAkt  200 (339)
T PRK15494        129 LHSADLVLLIIDSLK--SFDDITHNILDKLRS---LNIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALS  200 (339)
T ss_pred             hhhCCEEEEEEECCC--CCCHHHHHHHHHHHh---cCCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccC
Confidence            678999999999765  233332 34444433   24688899999998643   2445555555444  5799999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~  166 (198)
                      |.|++++|++|.+.+.+
T Consensus       201 g~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        201 GKNIDGLLEYITSKAKI  217 (339)
T ss_pred             ccCHHHHHHHHHHhCCC
Confidence            99999999999887654

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.90  E-value=1.1e-22  Score=166.75  Aligned_cols=157  Identities=20%  Similarity=0.312  Sum_probs=114.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-------CCCCCccc------ceeeeEEE--EEEE---CCeEEEEEEEeCCCccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-------YLDSYIST------IGVDFKIR--TVEQ---DGKTVKLQIWDTAGQER   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-------~~~~~~~~------~~~~~~~~--~~~~---~~~~~~~~i~D~~g~~~   64 (198)
                      .=+|+++|+.++|||||+++|+...       +...+..+      .+.+....  .+.+   ++..+.+.+|||||+.+
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            3479999999999999999998532       11111111      13333322  2333   45668999999999999


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC---c
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI---P  141 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~---~  141 (198)
                      +...+..++..+|++|+|+|++++.+......|...+.    .+.|+++|+||+|+.+..  ..+...++...+++   .
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~  156 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASE  156 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcce
Confidence            98888999999999999999998766666666654332    368999999999986432  12233445555565   3


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHH
Q 043946          142 FMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       142 ~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ++++||++|.|++++|++|.+.+.
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhCC
Confidence            899999999999999999987764

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.90  E-value=1.8e-22  Score=168.65  Aligned_cols=153  Identities=20%  Similarity=0.229  Sum_probs=113.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +...|+|+|..++|||||+++|....+......+.+.+.....+.+++  ..+.||||||++.|..++...+..+|++||
T Consensus       289 R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaIL  366 (787)
T PRK05306        289 RPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVVL  366 (787)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEEE
Confidence            567899999999999999999987766555555555555555666665  679999999999999999989999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-------HHHHhC--CcEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-------FADEIG--IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-------~~~~~~--~~~~~~S~~~~~~  152 (198)
                      |||+++...-.    +...+......++|+++++||+|+.+..   .+.+..       +...++  ++++++||++|.|
T Consensus       367 VVdAddGv~~q----T~e~i~~a~~~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~G  439 (787)
T PRK05306        367 VVAADDGVMPQ----TIEAINHAKAAGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEG  439 (787)
T ss_pred             EEECCCCCCHh----HHHHHHHHHhcCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCC
Confidence            99998843211    1222222233478999999999996532   222221       122333  6899999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          153 VEQAFMAMTAD  163 (198)
Q Consensus       153 i~~~~~~l~~~  163 (198)
                      ++++|++|...
T Consensus       440 I~eLle~I~~~  450 (787)
T PRK05306        440 IDELLEAILLQ  450 (787)
T ss_pred             chHHHHhhhhh
Confidence            99999998753

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.90  E-value=1e-22  Score=141.57  Aligned_cols=142  Identities=23%  Similarity=0.255  Sum_probs=99.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc----ccccccccCccEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR----TITSSYYRGAHGII   80 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~~~~~~~~~d~~i   80 (198)
                      +|+++|.+|+|||||+|+|.+....  ...+       ..+.+...    .+||+||.....    ......+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~--~~~~-------~~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTL--ARKT-------QAVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcc--Cccc-------eEEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            7999999999999999998864311  1111       11222221    269999963211    11123468999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC--cEEEEeccCCCCHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI--PFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~S~~~~~~i~~~~~  158 (198)
                      +|+|+++..++.  ..|+..+    ..+.|+++++||+|+.+.   ..+.+.+++...+.  +++++|+++|.|++++|+
T Consensus        70 ~v~d~~~~~s~~--~~~~~~~----~~~~~ii~v~nK~Dl~~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~  140 (158)
T PRK15467         70 YVHGANDPESRL--PAGLLDI----GVSKRQIAVISKTDMPDA---DVAATRKLLLETGFEEPIFELNSHDPQSVQQLVD  140 (158)
T ss_pred             EEEeCCCccccc--CHHHHhc----cCCCCeEEEEEccccCcc---cHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHH
Confidence            999999876642  2333222    235799999999998542   35666677777774  899999999999999999


Q ss_pred             HHHHHHHHhh
Q 043946          159 AMTADIKNRM  168 (198)
Q Consensus       159 ~l~~~~~~~~  168 (198)
                      +|.+.+.+..
T Consensus       141 ~l~~~~~~~~  150 (158)
T PRK15467        141 YLASLTKQEE  150 (158)
T ss_pred             HHHHhchhhh
Confidence            9988876543

>cd01895 EngA2 EngA2 subfamily

Probab=99.90  E-value=3.6e-22  Score=140.50  Aligned_cols=155  Identities=25%  Similarity=0.257  Sum_probs=103.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-----------ccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-----------ITS   70 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   70 (198)
                      +++|+++|.+|+|||||+++|.+.... ....+..+.......+..++  ..+.+||+||......           ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            689999999999999999999876532 12223333333334455555  4578999999643311           112


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-HHHHh----CCcEEEE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-FADEI----GIPFMET  145 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-~~~~~----~~~~~~~  145 (198)
                      ..+..+|++++|+|+.++.+.... .+...+   ...+.|+++++||+|+........+...+ .....    ..+++++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~---~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGLI---LEEGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFI  155 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHHH---HhcCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence            346789999999999987664432 222222   22368999999999987553222222222 22222    2689999


Q ss_pred             eccCCCCHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.|++++++++.+.
T Consensus       156 Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         156 SALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             eccCCCCHHHHHHHHHHh
Confidence            999999999999998764

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.90  E-value=1.8e-22  Score=161.70  Aligned_cols=175  Identities=22%  Similarity=0.238  Sum_probs=120.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------cccccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSYYR   74 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~~   74 (198)
                      ++|+++|.+|||||||+|+|.+.... ....+..+.+.....+.+.+  ..+.+|||||.+.        +......++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999976531 22234444455555666666  7899999999876        2233455678


Q ss_pred             CccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           75 GAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      .+|++++|+|+.++.+..  .+..|+   ..   .+.|+++|+||+|+.+.    .+...++ ...++ .++++||++|.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l---~~---~~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~  148 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKIL---RK---SNKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGR  148 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHH---HH---cCCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCC
Confidence            999999999998753322  223333   22   26899999999997532    1222222 34565 48999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          152 NVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      |++++|++|.+.....   ...........+.+-+.++.+|++
T Consensus       149 gv~~l~~~I~~~~~~~---~~~~~~~~~~~v~ivG~~n~GKSt  188 (435)
T PRK00093        149 GIGDLLDAILEELPEE---EEEDEEDEPIKIAIIGRPNVGKSS  188 (435)
T ss_pred             CHHHHHHHHHhhCCcc---ccccccccceEEEEECCCCCCHHH
Confidence            9999999998733221   111113346778888888888875

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=5.4e-22  Score=155.24  Aligned_cols=161  Identities=20%  Similarity=0.225  Sum_probs=114.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------cccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------RTITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------~~~~~~~~~~~d   77 (198)
                      .|+|+|.||||||||+|+|.+.+......+.++.....-.+.... ...+.++|+||...-       .......+.++|
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            689999999999999999997654333334444444444444443 135899999996421       111223578899


Q ss_pred             EEEEEEECC---ChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccCC
Q 043946           78 GIIIVYDVT---DQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKDS  150 (198)
Q Consensus        78 ~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~~  150 (198)
                      ++++|+|++   +.+++..+..|++.+..+..  .+.|+++|+||+|+.....+ .+.+.++.+..+  .+++++||+++
T Consensus       240 vlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg  318 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASG  318 (390)
T ss_pred             EEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCC
Confidence            999999998   45567777788877766532  35899999999998654322 334444544444  47899999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q 043946          151 LNVEQAFMAMTADIKNR  167 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~~  167 (198)
                      .|+++++++|.+.+.+.
T Consensus       319 ~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        319 LGVKELCWDLMTFIEEN  335 (390)
T ss_pred             cCHHHHHHHHHHHhhhC
Confidence            99999999999888654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.90  E-value=1.4e-22  Score=161.99  Aligned_cols=177  Identities=21%  Similarity=0.227  Sum_probs=121.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc--------cccccccccccC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE--------RFRTITSSYYRG   75 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~~~   75 (198)
                      +|+++|.+|||||||+|+|.+.... ....++.+.+.....+.+.+  ..+.+|||||..        .+......++..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            5899999999999999999976531 22334444455555666666  579999999962        334455667899


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~  154 (198)
                      +|++++|+|+.++.+... ..+...+.+   .+.|+++|+||+|+......    .. .+...++ +++++||.+|.|++
T Consensus        79 ad~vl~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~----~~-~~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        79 ADVILFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV----AA-EFYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             CCEEEEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc----HH-HHHhcCCCCeEEEeCCcCCChH
Confidence            999999999987543222 122333333   26899999999998654321    11 1335566 79999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          155 QAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       155 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++++++.+.+.+...  ..........+.+-+.+..+|++
T Consensus       150 ~ll~~i~~~l~~~~~--~~~~~~~~~~v~ivG~~~~GKSs  187 (429)
T TIGR03594       150 DLLDAILELLPEEEE--EEEEEDGPIKIAIIGRPNVGKST  187 (429)
T ss_pred             HHHHHHHHhcCcccc--cccccCCceEEEEECCCCCCHHH
Confidence            999999887744221  11222344567788888888875

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.89  E-value=2e-22  Score=167.04  Aligned_cols=156  Identities=19%  Similarity=0.215  Sum_probs=112.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEE--EEECCeEEEEEEEeCCCcccccccccccccCccEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRT--VEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGI   79 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~   79 (198)
                      +..+|+|+|..++|||||+++|....+.....++.+.+.....  +...+....+.+|||||++.|..++..++..+|++
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDia  322 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIA  322 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEE
Confidence            4578999999999999999999877665444444443333333  33334457899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-------HHhC--CcEEEEeccCC
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFA-------DEIG--IPFMETSAKDS  150 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-------~~~~--~~~~~~S~~~~  150 (198)
                      |+|+|+++.........    +......++|+++++||+|+....   .+.+....       ..++  ++++++||++|
T Consensus       323 ILVVDA~dGv~~QT~E~----I~~~k~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG  395 (742)
T CHL00189        323 ILIIAADDGVKPQTIEA----INYIQAANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQG  395 (742)
T ss_pred             EEEEECcCCCChhhHHH----HHHHHhcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCC
Confidence            99999987533222222    222233478999999999986532   22222222       2233  58999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADI  164 (198)
Q Consensus       151 ~~i~~~~~~l~~~~  164 (198)
                      .|++++|++|....
T Consensus       396 ~GIdeLle~I~~l~  409 (742)
T CHL00189        396 TNIDKLLETILLLA  409 (742)
T ss_pred             CCHHHHHHhhhhhh
Confidence            99999999987754

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.89  E-value=5.9e-23  Score=134.87  Aligned_cols=158  Identities=27%  Similarity=0.447  Sum_probs=123.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+.+.++|..++|||||.|....+.+.+...|+.+  +....++-++  +.+.+||.||+..+..+|..|.+.+++++||
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmrk~tkgn--vtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMRKVTKGN--VTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeEEeccCc--eEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            46889999999999999999998888888888877  3444444444  8899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~~  156 (198)
                      +|+.+++.+..... ....+.+..-.++|+++++||.|++..-  ...++-.-...     ..+-++.+|+++..|++.+
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL--~~~~li~rmgL~sitdREvcC~siScke~~Nid~~  173 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGAL--SKIALIERMGLSSITDREVCCFSISCKEKVNIDIT  173 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccc--cHHHHHHHhCccccccceEEEEEEEEcCCccHHHH
Confidence            99999887765544 4444444455689999999999997643  33322221111     1245799999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          157 FMAMTADIKN  166 (198)
Q Consensus       157 ~~~l~~~~~~  166 (198)
                      .+||++....
T Consensus       174 ~~Wli~hsk~  183 (186)
T KOG0075|consen  174 LDWLIEHSKS  183 (186)
T ss_pred             HHHHHHHhhh
Confidence            9999987654

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.89  E-value=1.7e-22  Score=156.15  Aligned_cols=179  Identities=19%  Similarity=0.150  Sum_probs=127.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc---------ccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR---------TITSSYY   73 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~   73 (198)
                      ..|+++|.||||||||+|||++.+. .-+..|+.+.+.......+.+  ..+.++||+|.+...         .+....+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~--~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG--REFILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcC--ceEEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            4699999999999999999998543 334556777777778888888  558999999966322         2344567


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~  152 (198)
                      ..+|++|||+|....-+-.. ....+.+.   ..++|+++|+||+|...     .+......-.+|. ..+.+||..|.|
T Consensus        82 ~eADvilfvVD~~~Git~~D-~~ia~~Lr---~~~kpviLvvNK~D~~~-----~e~~~~efyslG~g~~~~ISA~Hg~G  152 (444)
T COG1160          82 EEADVILFVVDGREGITPAD-EEIAKILR---RSKKPVILVVNKIDNLK-----AEELAYEFYSLGFGEPVPISAEHGRG  152 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHH-HHHHHHHH---hcCCCEEEEEEcccCch-----hhhhHHHHHhcCCCCceEeehhhccC
Confidence            88999999999987432111 22222233   23689999999999752     2222223334454 789999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          153 VEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +.++++++.+.+. ...+........+..+.+-++|+.+||+
T Consensus       153 i~dLld~v~~~l~-~~e~~~~~~~~~~ikiaiiGrPNvGKSs  193 (444)
T COG1160         153 IGDLLDAVLELLP-PDEEEEEEEETDPIKIAIIGRPNVGKSS  193 (444)
T ss_pred             HHHHHHHHHhhcC-CcccccccccCCceEEEEEeCCCCCchH
Confidence            9999999999875 2222222222478899999999999987

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.89  E-value=3.6e-22  Score=143.65  Aligned_cols=157  Identities=18%  Similarity=0.183  Sum_probs=103.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----------cccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTITSS   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~~   71 (198)
                      ..++|+++|.+|||||||+++|.+..+.....++.+.+.....+..+   ..+.+||+||..          .+......
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~---~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~   99 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEVN---DKLRLVDLPGYGYAKVSKEEKEKWQKLIEE   99 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEecC---CeEEEeCCCCCCCcCCCchHHHHHHHHHHH
Confidence            45899999999999999999999865444444444444433333332   579999999942          22223333


Q ss_pred             ccc---CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHHhCCcEEEEe
Q 043946           72 YYR---GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        72 ~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~S  146 (198)
                      ++.   ..+++++|+|..++...... .+...+.   ..+.|+++++||+|+.+....  ..+++.........+++++|
T Consensus       100 ~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~S  175 (196)
T PRK00454        100 YLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLK---EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFS  175 (196)
T ss_pred             HHHhCccceEEEEEEecCCCCCHHHH-HHHHHHH---HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEE
Confidence            443   34688899998775432221 1122222   236899999999998653221  12234444444467899999


Q ss_pred             ccCCCCHHHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~  165 (198)
                      ++++.|+++++++|.+.+.
T Consensus       176 a~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        176 SLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             cCCCCCHHHHHHHHHHHhc
Confidence            9999999999999987765

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.89  E-value=7.8e-22  Score=165.66  Aligned_cols=181  Identities=19%  Similarity=0.156  Sum_probs=120.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   73 (198)
                      ..+|+++|.+|||||||+|+|++... .....++.+.+.......+.+  ..+.+|||||.+.        +......++
T Consensus       275 ~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~  352 (712)
T PRK09518        275 VGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQIAV  352 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHHHH
Confidence            36899999999999999999997643 122334444444444445555  5789999999653        223344567


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~  152 (198)
                      ..+|++|||+|+.+.-... -..|...+..   .+.|+++|+||+|+....    .....+ ...+. ..+++||++|.|
T Consensus       353 ~~aD~iL~VvDa~~~~~~~-d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~----~~~~~~-~~lg~~~~~~iSA~~g~G  423 (712)
T PRK09518        353 SLADAVVFVVDGQVGLTST-DERIVRMLRR---AGKPVVLAVNKIDDQASE----YDAAEF-WKLGLGEPYPISAMHGRG  423 (712)
T ss_pred             HhCCEEEEEEECCCCCCHH-HHHHHHHHHh---cCCCEEEEEECcccccch----hhHHHH-HHcCCCCeEEEECCCCCC
Confidence            8999999999997642211 1234444433   478999999999985421    111222 12333 467999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          153 VEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++++|++|.+.+...............+.+.+-+.++.||++
T Consensus       424 I~eLl~~i~~~l~~~~~~~~a~~~~~~~kI~ivG~~nvGKSS  465 (712)
T PRK09518        424 VGDLLDEALDSLKVAEKTSGFLTPSGLRRVALVGRPNVGKSS  465 (712)
T ss_pred             chHHHHHHHHhcccccccccccCCCCCcEEEEECCCCCCHHH
Confidence            999999999887542211110112345788899999999886

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.89  E-value=5.8e-22  Score=162.44  Aligned_cols=154  Identities=15%  Similarity=0.198  Sum_probs=116.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC---CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +.|+++|.+++|||||+++|.+.   .++++..++.+.+.....+..++  ..+.+||+||++.+.......+.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            46899999999999999999863   34445556666666666677766  78999999999998888888889999999


Q ss_pred             EEEECCC---hhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC--CHHHHHHHHHHh----CCcEEEEeccCC
Q 043946           81 IVYDVTD---QESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV--SYETAKAFADEI----GIPFMETSAKDS  150 (198)
Q Consensus        81 ~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~S~~~~  150 (198)
                      +|+|+++   +++..++    ..+..   .++| +++++||+|+.+...+  ..+++..+....    +++++++|+++|
T Consensus        79 LVVDa~~G~~~qT~ehl----~il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG  151 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHL----AVLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTG  151 (581)
T ss_pred             EEEECCCCCcHHHHHHH----HHHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCC
Confidence            9999998   3343322    22322   2567 9999999999754322  123455555544    478999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADIKN  166 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~  166 (198)
                      .|+++++++|.+.+..
T Consensus       152 ~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       152 QGIGELKKELKNLLES  167 (581)
T ss_pred             CCchhHHHHHHHHHHh
Confidence            9999999998776654

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.89  E-value=1.5e-22  Score=144.79  Aligned_cols=157  Identities=23%  Similarity=0.287  Sum_probs=107.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC--CC----------------CCcccceeeeEEEEEE--ECCeEEEEEEEeCCC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY--LD----------------SYISTIGVDFKIRTVE--QDGKTVKLQIWDTAG   61 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~--~~----------------~~~~~~~~~~~~~~~~--~~~~~~~~~i~D~~g   61 (198)
                      ..++|+++|+.++|||||+++|+....  ..                +.....+.......+.  ..+  ..+.++|+||
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~--~~i~~iDtPG   79 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENN--RKITLIDTPG   79 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESS--EEEEEEEESS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccc--cceeeccccc
Confidence            468999999999999999999984321  11                0112233344444454  444  7899999999


Q ss_pred             cccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc-CCHHHHH-HHHHHhC
Q 043946           62 QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV-VSYETAK-AFADEIG  139 (198)
Q Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~-~~~~~~~-~~~~~~~  139 (198)
                      +..+.......+..+|++|+|+|+.++-... ....+..+..   .+.|+++++||+|+...+. ...+++. .+.+..+
T Consensus        80 ~~~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~  155 (188)
T PF00009_consen   80 HEDFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYG  155 (188)
T ss_dssp             SHHHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccceeecccceecccccceeeeecccccccc-cccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhccccc
Confidence            9998888888899999999999998764322 2333333333   3789999999999973210 0112222 2333332


Q ss_pred             ------CcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          140 ------IPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       140 ------~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                            ++++++||.+|.|++++++.|.+.+
T Consensus       156 ~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  156 ENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             STTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             cCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence                  4699999999999999999998765

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>cd04163 Era Era subfamily

Probab=99.89  E-value=1.4e-21  Score=136.55  Aligned_cols=156  Identities=17%  Similarity=0.132  Sum_probs=101.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc--------ccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT--------ITSSYYR   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~   74 (198)
                      ..+|+++|++|+|||||+++|.+................... ........+.+||+||......        .....+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRG-IYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEE-EEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            478999999999999999999976543221111111111111 1222236789999999653321        2344578


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNV  153 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i  153 (198)
                      .+|++++|+|+.++.. .....+...+...   +.|+++++||+|+........+....+..... .+++++|++++.|+
T Consensus        82 ~~d~i~~v~d~~~~~~-~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  157 (168)
T cd04163          82 DVDLVLFVVDASEPIG-EGDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENV  157 (168)
T ss_pred             hCCEEEEEEECCCccC-chHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCCh
Confidence            8999999999998621 1112222333222   58999999999987433222333444444443 58999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          154 EQAFMAMTAD  163 (198)
Q Consensus       154 ~~~~~~l~~~  163 (198)
                      ++++++|.+.
T Consensus       158 ~~l~~~l~~~  167 (168)
T cd04163         158 DELLEEIVKY  167 (168)
T ss_pred             HHHHHHHHhh
Confidence            9999999764

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.88  E-value=5.5e-22  Score=143.39  Aligned_cols=159  Identities=18%  Similarity=0.220  Sum_probs=100.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCC---CCCCcccceeeeEEEEEEEC---------------------------C----
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSY---LDSYISTIGVDFKIRTVEQD---------------------------G----   49 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~---~~~~~~~~~~~~~~~~~~~~---------------------------~----   49 (198)
                      ++|+++|+.|+|||||++.+.+...   ........+.......+.+.                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            4799999999999999999965311   11111111111111111110                           1    


Q ss_pred             eEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--C
Q 043946           50 KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--S  127 (198)
Q Consensus        50 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~  127 (198)
                      ....+.+||+||++.+...+...+..+|++++|+|+.++.........+..+...  ...|+++|+||+|+.+....  .
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHH
Confidence            1167999999999988777777888899999999998742111111122222222  12478999999998643211  1


Q ss_pred             HHHHHHHHHHh---CCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          128 YETAKAFADEI---GIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       128 ~~~~~~~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      .+++.+++..+   +.+++++||++|.|++++|++|.+.+
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            13333333332   56899999999999999999997654

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>PRK00089 era GTPase Era; Reviewed

Probab=99.88  E-value=1.4e-21  Score=148.82  Aligned_cols=157  Identities=17%  Similarity=0.186  Sum_probs=102.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc--------ccccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR--------TITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~~   75 (198)
                      -.|+|+|.+|||||||+|+|++...........++......+... ...++.+|||||.....        ......+..
T Consensus         6 g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~-~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~   84 (292)
T PRK00089          6 GFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTE-DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKD   84 (292)
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEc-CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhc
Confidence            468999999999999999999876532222221112222222222 22689999999964321        223346788


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~  154 (198)
                      +|++++|+|+++... .........+.   ..+.|+++|+||+|+..........+..+....+ ..++++||+++.|++
T Consensus        85 ~D~il~vvd~~~~~~-~~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~  160 (292)
T PRK00089         85 VDLVLFVVDADEKIG-PGDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVD  160 (292)
T ss_pred             CCEEEEEEeCCCCCC-hhHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHH
Confidence            999999999988322 11122222232   2368999999999996332222334444544444 578999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          155 QAFMAMTADIK  165 (198)
Q Consensus       155 ~~~~~l~~~~~  165 (198)
                      +++++|.+.+.
T Consensus       161 ~L~~~L~~~l~  171 (292)
T PRK00089        161 ELLDVIAKYLP  171 (292)
T ss_pred             HHHHHHHHhCC
Confidence            99999988764

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.88  E-value=2.7e-21  Score=139.64  Aligned_cols=118  Identities=22%  Similarity=0.405  Sum_probs=85.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCc-cEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGA-HGIIIVY   83 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~-d~~i~v~   83 (198)
                      +|+++|++|||||||+++|....+...+.++ ........+...+....+.+||+||+..+...+..++..+ +++|||+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            6899999999999999999988766554433 2122221221113346799999999999988888889998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHH-HHHh--cCCCCcEEEEEeCCCCCCC
Q 043946           84 DVTDQ-ESFNNVKQWLNE-IDRY--ASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        84 d~~~~-~s~~~~~~~~~~-~~~~--~~~~~p~iiv~nK~D~~~~  123 (198)
                      |+.+. .++..+..++.. +...  ...+.|+++++||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 566665554433 3221  2247999999999998653

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.88  E-value=1.6e-21  Score=160.08  Aligned_cols=146  Identities=21%  Similarity=0.255  Sum_probs=108.8

Q ss_pred             cCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc------ccccc--cCccEEEE
Q 043946           10 GDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI------TSSYY--RGAHGIII   81 (198)
Q Consensus        10 G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--~~~d~~i~   81 (198)
                      |.+|||||||+|+|.+........++.+.+.....+..++  ..+.+||+||..++...      ...++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998766555556666666656666666  56899999998776443      22232  47899999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+|+++.+..   ..+..++.   ..+.|+++++||+|+.+...+. .+.+.+.+..+++++++||++|.|++++++++.
T Consensus        79 VvDat~ler~---l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLERN---LYLTLQLL---ELGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchhh---HHHHHHHH---hcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            9999874322   22222222   2378999999999986554443 456778888899999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +..
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            753

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.88  E-value=2.6e-22  Score=135.50  Aligned_cols=158  Identities=28%  Similarity=0.450  Sum_probs=120.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC---CC----CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD---SY----LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~---~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   76 (198)
                      +.|+|+|..++|||||+.++...   .+    +....++.+....  ++.+.+  ..+.+||.+|++...++|..|+..+
T Consensus        18 y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig--~i~v~~--~~l~fwdlgGQe~lrSlw~~yY~~~   93 (197)
T KOG0076|consen   18 YSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG--TIEVCN--APLSFWDLGGQESLRSLWKKYYWLA   93 (197)
T ss_pred             hhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec--ceeecc--ceeEEEEcCChHHHHHHHHHHHHHh
Confidence            57899999999999999887531   11    1223344443333  334443  6799999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHH-HhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH---Hh---CCcEEEEeccC
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEID-RYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD---EI---GIPFMETSAKD  149 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~---~~---~~~~~~~S~~~  149 (198)
                      +++|+++|+++++.+......+..+. .....+.|+++.+||.|+.+.  ...++++....   ..   ..++.++||.+
T Consensus        94 H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~~~~pvSal~  171 (197)
T KOG0076|consen   94 HGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDNPFQPVSALT  171 (197)
T ss_pred             ceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccCccccchhhh
Confidence            99999999999988887766555443 334468999999999999764  34555555444   22   25789999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q 043946          150 SLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~  167 (198)
                      |.||++..+|+...+...
T Consensus       172 gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  172 GEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             cccHHHHHHHHHHHHhhc
Confidence            999999999999988764

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.88  E-value=1.3e-21  Score=138.87  Aligned_cols=146  Identities=17%  Similarity=0.219  Sum_probs=95.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----------cccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTITSS   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~~   71 (198)
                      ..++|+++|.+|+|||||+++|.+........++.+.+.....+..++   .+.+||+||..          .+..+...
T Consensus        17 ~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~~~   93 (179)
T TIGR03598        17 DGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLIEE   93 (179)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHHHH
Confidence            457999999999999999999998653333334444444444444443   58999999953          12222233


Q ss_pred             ccc---CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHHhC--CcEEE
Q 043946           72 YYR---GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADEIG--IPFME  144 (198)
Q Consensus        72 ~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~--~~~~~  144 (198)
                      ++.   .+|++++|+|+.++.+.... .++..+..   .+.|+++++||+|+......  ..+++++.+...+  .++++
T Consensus        94 ~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~  169 (179)
T TIGR03598        94 YLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQL  169 (179)
T ss_pred             HHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEE
Confidence            443   46899999999875443333 22333322   36899999999998643211  2344555555543  47999


Q ss_pred             EeccCCCCHH
Q 043946          145 TSAKDSLNVE  154 (198)
Q Consensus       145 ~S~~~~~~i~  154 (198)
                      +||++|.|++
T Consensus       170 ~Sa~~g~gi~  179 (179)
T TIGR03598       170 FSSLKKTGID  179 (179)
T ss_pred             EECCCCCCCC
Confidence            9999999873

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=3.3e-21  Score=154.35  Aligned_cols=157  Identities=25%  Similarity=0.266  Sum_probs=106.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-----------cc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-----------TS   70 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------~~   70 (198)
                      .++|+++|.+|+|||||+|+|++.. ......++.+.+.....+...+  ..+.+|||||.......           ..
T Consensus       173 ~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~  250 (435)
T PRK00093        173 PIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIRTL  250 (435)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHHHH
Confidence            5899999999999999999999754 2233344444444444555555  56889999996432111           12


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-HHHH----hCCcEEEE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-FADE----IGIPFMET  145 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~~  145 (198)
                      ..+..+|++|+|+|++++.+..... +...+..   .+.|+++++||+|+.+...  .++..+ +...    ..++++++
T Consensus       251 ~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~--~~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        251 KAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT--MEEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH--HHHHHHHHHHhcccccCCCEEEE
Confidence            3678899999999999876644432 2222322   3689999999999863321  122222 2112    24689999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHh
Q 043946          146 SAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ||++|.|++++|+++.+.+.+.
T Consensus       325 SA~~~~gv~~l~~~i~~~~~~~  346 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYENA  346 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999998876543

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.87  E-value=2.3e-21  Score=162.81  Aligned_cols=158  Identities=23%  Similarity=0.234  Sum_probs=109.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc----------cccc-cc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER----------FRTI-TS   70 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~-~~   70 (198)
                      .++|+++|.+|||||||+|+|++.... ....++++.+.....+.+++  ..+.+|||||...          +..+ ..
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~--~~~~liDTaG~~~~~~~~~~~e~~~~~r~~  527 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDG--EDWLFIDTAGIKRRQHKLTGAEYYSSLRTQ  527 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECC--CEEEEEECCCcccCcccchhHHHHHHHHHH
Confidence            479999999999999999999987531 23334444555555666676  4577999999532          1111 12


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-Hh----CCcEEEE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-EI----GIPFMET  145 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-~~----~~~~~~~  145 (198)
                      ..++.+|++++|+|++++.+...... +..+.   ..+.|+++|+||+|+.+...  .+....... ..    .++++++
T Consensus       528 ~~i~~advvilViDat~~~s~~~~~i-~~~~~---~~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~i  601 (712)
T PRK09518        528 AAIERSELALFLFDASQPISEQDLKV-MSMAV---DAGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNL  601 (712)
T ss_pred             HHhhcCCEEEEEEECCCCCCHHHHHH-HHHHH---HcCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEE
Confidence            34688999999999998876655543 22232   23689999999999965321  222222222 11    2477999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHhh
Q 043946          146 SAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      ||++|.|++++|+.+.+.+.+..
T Consensus       602 SAktg~gv~~L~~~i~~~~~~~~  624 (712)
T PRK09518        602 SAKTGWHTNRLAPAMQEALESWD  624 (712)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999998887533

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.87  E-value=3.6e-21  Score=158.09  Aligned_cols=158  Identities=22%  Similarity=0.271  Sum_probs=112.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCC-------------CCcccceeeeEEEEEEE---CCeEEEEEEEeCCCccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLD-------------SYISTIGVDFKIRTVEQ---DGKTVKLQIWDTAGQER   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~~   64 (198)
                      .-+|+++|+.++|||||+++|+...  +..             +.....+.......+.+   ++..+.+.+|||||+.+
T Consensus         7 iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~d   86 (600)
T PRK05433          7 IRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVD   86 (600)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHH
Confidence            3489999999999999999997521  111             01112222222222222   45568999999999999


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc---
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP---  141 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~---  141 (198)
                      +...+..++..+|++|+|+|++++........|....    ..+.|+++|+||+|+.+..  ......++....++.   
T Consensus        87 F~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~  160 (600)
T PRK05433         87 FSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASD  160 (600)
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcce
Confidence            9888899999999999999999865555555554322    2368999999999986432  122233444445554   


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          142 FMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       142 ~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++++||++|.|+++++++|.+.+..
T Consensus       161 vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        161 AVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             EEEEecCCCCCHHHHHHHHHHhCcc
Confidence            8999999999999999999887643

>COG1159 Era GTPase [General function prediction only]

Probab=99.87  E-value=2.2e-21  Score=142.70  Aligned_cols=158  Identities=18%  Similarity=0.168  Sum_probs=106.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------ccccccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~~~   75 (198)
                      --|+++|.||||||||+|+|++.+..-......++......+...+ ..++.++||||.-.        +.......+..
T Consensus         7 GfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~-~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~d   85 (298)
T COG1159           7 GFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD-NAQIIFVDTPGIHKPKHALGELMNKAARSALKD   85 (298)
T ss_pred             EEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC-CceEEEEeCCCCCCcchHHHHHHHHHHHHHhcc
Confidence            4589999999999999999999776543333333333334433333 47999999999432        22233446788


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~  154 (198)
                      +|+++||+|+.++... .-...++.+..   .+.|+++++||+|..............+..... ..++++||++|.|++
T Consensus        86 vDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~  161 (298)
T COG1159          86 VDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVD  161 (298)
T ss_pred             CcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHH
Confidence            9999999999874321 11223333333   367999999999987654322233333333333 378999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          155 QAFMAMTADIKN  166 (198)
Q Consensus       155 ~~~~~l~~~~~~  166 (198)
                      .+.+.+...+.+
T Consensus       162 ~L~~~i~~~Lpe  173 (298)
T COG1159         162 TLLEIIKEYLPE  173 (298)
T ss_pred             HHHHHHHHhCCC
Confidence            999998877754

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.87  E-value=1.1e-20  Score=158.58  Aligned_cols=153  Identities=17%  Similarity=0.200  Sum_probs=111.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc----------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI----------TSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----------~~~~   72 (198)
                      .++|+++|.+|||||||+|+|.+........+..+.+.....+  .....++.+||+||..++...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~--~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQF--STTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEE--EcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            5789999999999999999999865533334444444333334  334478999999998765421          1112


Q ss_pred             --ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC
Q 043946           73 --YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS  150 (198)
Q Consensus        73 --~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~  150 (198)
                        ...+|++++|+|+++.+...   .+..++.+   .+.|+++++||+|+.+.+.+ ..+.+++.+.++++++++|+.++
T Consensus        81 l~~~~aD~vI~VvDat~ler~l---~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~g  153 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERNL---YLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRG  153 (772)
T ss_pred             HhccCCCEEEEEecCCcchhhH---HHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecC
Confidence              24799999999999865432   23333433   26899999999998755443 35567788889999999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADI  164 (198)
Q Consensus       151 ~~i~~~~~~l~~~~  164 (198)
                      .|++++++.+.+..
T Consensus       154 ~GIdeL~~~I~~~~  167 (772)
T PRK09554        154 RGIEALKLAIDRHQ  167 (772)
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999999987764

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.87  E-value=5.7e-21  Score=147.79  Aligned_cols=163  Identities=25%  Similarity=0.225  Sum_probs=117.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC-CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-----------c
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD-SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-----------T   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------~   69 (198)
                      ..+||+|+|.||+|||||+|+|++. +......++++.+.....++.++  .++.++||+|...-...           .
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~--~~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG--RKYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECC--eEEEEEECCCCCcccccccceEEEeehhh
Confidence            4699999999999999999999974 33445556666777777787778  56788899995432111           2


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH----h-CCcEEE
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE----I-GIPFME  144 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~----~-~~~~~~  144 (198)
                      ...+..+|++++|+|++.+-+    .+...........+.+++||+||||+.+.+....++.+.....    . .++++.
T Consensus       255 ~~aI~~a~vvllviDa~~~~~----~qD~~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~  330 (444)
T COG1160         255 LKAIERADVVLLVIDATEGIS----EQDLRIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVF  330 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCch----HHHHHHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEE
Confidence            235678999999999998765    2222223333345789999999999977543444444333222    2 268999


Q ss_pred             EeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          145 TSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +||++|.++.++|+.+.+........
T Consensus       331 iSA~~~~~i~~l~~~i~~~~~~~~~r  356 (444)
T COG1160         331 ISALTGQGLDKLFEAIKEIYECATRR  356 (444)
T ss_pred             EEecCCCChHHHHHHHHHHHHHhccc
Confidence            99999999999999998877665544

>cd00880 Era_like Era (E

Probab=99.87  E-value=5.9e-21  Score=132.19  Aligned_cols=151  Identities=21%  Similarity=0.154  Sum_probs=102.1

Q ss_pred             EEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-------cccccccCccEE
Q 043946            8 LIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-------ITSSYYRGAHGI   79 (198)
Q Consensus         8 v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~~~~~~~~d~~   79 (198)
                      ++|++|+|||||++++.+.... .......+.......+.... ...+.+||+||......       ....++..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999875443 22223333333333333331 36799999999765533       334477899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHH---HHHHHHHHhCCcEEEEeccCCCCHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYE---TAKAFADEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      ++|+|+.+........ +....   ...+.|+++|+||+|+.........   .........+.+++++|+.++.|++++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~---~~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELL---RERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHH---HhcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999876654443 22222   2347899999999998754322111   112223334578999999999999999


Q ss_pred             HHHHHHH
Q 043946          157 FMAMTAD  163 (198)
Q Consensus       157 ~~~l~~~  163 (198)
                      +++|.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9998764

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.86  E-value=2.1e-23  Score=142.27  Aligned_cols=194  Identities=34%  Similarity=0.569  Sum_probs=156.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeE-EEEEEEeCCCcccccccccccccCccEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT-VKLQIWDTAGQERFRTITSSYYRGAHGI   79 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~D~~g~~~~~~~~~~~~~~~d~~   79 (198)
                      |+.++++|+|.-++|||+++++++...++.++..+++.++......++... +++++||..|++++..+..-|++.+.+.
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~  102 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGA  102 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcce
Confidence            457899999999999999999999888888999999998888877776543 5789999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhc----CCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHHhCC-cEEEEeccCCCCH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKCDLTDKKVV-SYETAKAFADEIGI-PFMETSAKDSLNV  153 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~~~~-~~~~~S~~~~~~i  153 (198)
                      .+|||+++...|+....|.+.+..-.    +...|+++.+||+|....... ...+..++.+.+++ .-+++|++.+.++
T Consensus       103 ~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni  182 (229)
T KOG4423|consen  103 FIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNI  182 (229)
T ss_pred             EEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccCh
Confidence            99999999999999999998874321    234778999999998543222 24667788888886 7899999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          154 EQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       154 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +|+-+.|++.+.-.-.+.......+-..+.++..+.....+
T Consensus       183 ~Ea~r~lVe~~lvnd~q~~~s~~~~~~~~~l~~~~~s~~~g  223 (229)
T KOG4423|consen  183 PEAQRELVEKILVNDEQPIKSSAVDGDKINLRLMQPSEAAG  223 (229)
T ss_pred             hHHHHHHHHHHHhhccCCcccccccccccCccccCcchhhh
Confidence            99999999999877666665555555555454444443333

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.86  E-value=1.3e-20  Score=153.95  Aligned_cols=157  Identities=14%  Similarity=0.130  Sum_probs=103.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC----------------CeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD----------------GKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~g~~~~~   66 (198)
                      ..-|+++|.+++|||||+++|.+..+......+.+.+.....+..+                .....+.+|||||++.+.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            4569999999999999999999876644332222222111111111                001238899999999999


Q ss_pred             ccccccccCccEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC------------CHHHH
Q 043946           67 TITSSYYRGAHGIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV------------SYETA  131 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~------------~~~~~  131 (198)
                      .++..++..+|++++|+|+++   ++++..+.    .+.   ..+.|+++++||+|+......            ..+.+
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~---~~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v  156 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEALN----ILR---MYKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQV  156 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHH---HcCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHH
Confidence            989999999999999999987   44433332    222   236899999999998632100            00000


Q ss_pred             ------------HHHHH------------Hh--CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          132 ------------KAFAD------------EI--GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       132 ------------~~~~~------------~~--~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                                  ..+..            .+  .++++++||++|.|+++++++|......
T Consensus       157 ~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~  217 (590)
T TIGR00491       157 QQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQ  217 (590)
T ss_pred             HHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHH
Confidence                        01110            11  2589999999999999999998765443

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.86  E-value=1.9e-20  Score=124.33  Aligned_cols=163  Identities=26%  Similarity=0.511  Sum_probs=141.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||.++|.+..|||||.-.++++.+.+++..+.+...-.+++.+.+.+..+.+||.+|++++..+....-.++-+++|+
T Consensus        20 slkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFm   99 (205)
T KOG1673|consen   20 SLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFM   99 (205)
T ss_pred             EEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEE
Confidence            48999999999999999999999998888888899999999999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-----CHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-----SYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +|++.+.++..+..|+.+.+.....-+|+ +|++|-|+.-.-..     ...+.+.+++..+++++.+|+..+.|+..+|
T Consensus       100 FDLt~r~TLnSi~~WY~QAr~~NktAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv~KIF  178 (205)
T KOG1673|consen  100 FDLTRRSTLNSIKEWYRQARGLNKTAIPI-LVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINVQKIF  178 (205)
T ss_pred             EecCchHHHHHHHHHHHHHhccCCccceE-EeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccHHHHH
Confidence            99999999999999999988776655565 57999997432111     1234667788888999999999999999999


Q ss_pred             HHHHHHHHH
Q 043946          158 MAMTADIKN  166 (198)
Q Consensus       158 ~~l~~~~~~  166 (198)
                      ..+.-.+.+
T Consensus       179 K~vlAklFn  187 (205)
T KOG1673|consen  179 KIVLAKLFN  187 (205)
T ss_pred             HHHHHHHhC
Confidence            998887765

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.86  E-value=6.6e-21  Score=124.53  Aligned_cols=153  Identities=27%  Similarity=0.418  Sum_probs=118.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|-.++|||||++.|.+... .+..|+.+  +....+...+ .+.+++||.+|+......|.+|+.+.|++||
T Consensus        16 rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~lIy   91 (185)
T KOG0074|consen   16 REIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGLIY   91 (185)
T ss_pred             ceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceEEE
Confidence            578999999999999999999987553 35556555  5555555554 3899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--------CcEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--------IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~-~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~S~~~~~~  152 (198)
                      |+|.+|+-.|+++.+.+.++ ........|+.|.+||.|+...-     .++..+.+.+        ..+-++|+.+++|
T Consensus        92 VIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa-----~~eeia~klnl~~lrdRswhIq~csals~eg  166 (185)
T KOG0074|consen   92 VIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAA-----KVEEIALKLNLAGLRDRSWHIQECSALSLEG  166 (185)
T ss_pred             EEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhc-----chHHHHHhcchhhhhhceEEeeeCccccccC
Confidence            99999988888876655444 44444679999999999985432     2223333333        2467899999999


Q ss_pred             HHHHHHHHHHH
Q 043946          153 VEQAFMAMTAD  163 (198)
Q Consensus       153 i~~~~~~l~~~  163 (198)
                      +..-.+|+...
T Consensus       167 ~~dg~~wv~sn  177 (185)
T KOG0074|consen  167 STDGSDWVQSN  177 (185)
T ss_pred             ccCcchhhhcC
Confidence            99999887653

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.85  E-value=3.7e-21  Score=131.68  Aligned_cols=161  Identities=29%  Similarity=0.581  Sum_probs=142.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .++++++|..|.||||+.++++.+.+...+.++.+.+.....+..+.+.+++..||+.|++.+..+...++-++.+.|++
T Consensus        10 ~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiim   89 (216)
T KOG0096|consen   10 TFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIM   89 (216)
T ss_pred             eEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEE
Confidence            57899999999999999999999999999999999999888887766679999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|+..+..+.++..|...+.+.+. ++|+++.+||.|..+..  .......+.++.++.|+++|++.+-|++.-|.||.+
T Consensus        90 FdVtsr~t~~n~~rwhrd~~rv~~-NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~Lar  166 (216)
T KOG0096|consen   90 FDVTSRFTYKNVPRWHRDLVRVRE-NIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLAR  166 (216)
T ss_pred             eeeeehhhhhcchHHHHHHHHHhc-CCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHHhh
Confidence            999999999999999999988776 59999999999985432  233334455667789999999999999999999998


Q ss_pred             HHHH
Q 043946          163 DIKN  166 (198)
Q Consensus       163 ~~~~  166 (198)
                      .+.-
T Consensus       167 Kl~G  170 (216)
T KOG0096|consen  167 KLTG  170 (216)
T ss_pred             hhcC
Confidence            8864

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.85  E-value=1.6e-20  Score=149.69  Aligned_cols=152  Identities=18%  Similarity=0.156  Sum_probs=102.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCC-----------------------------CCCcccceeeeEEEEEEECCe
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYL-----------------------------DSYISTIGVDFKIRTVEQDGK   50 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~   50 (198)
                      ..++|+++|+.++|||||+++|+.  +...                             .+...+.+.+.....+..++ 
T Consensus         6 ~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~-   84 (426)
T TIGR00483         6 EHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK-   84 (426)
T ss_pred             ceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC-
Confidence            368999999999999999999974  2211                             11122344444444444444 


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNN--VKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--  126 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--  126 (198)
                       +.+.+||+||++.+.......+..+|++++|+|++++++...  ...+.... .... ..|+++++||+|+.+....  
T Consensus        85 -~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~-~~~~-~~~iIVviNK~Dl~~~~~~~~  161 (426)
T TIGR00483        85 -YEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLA-RTLG-INQLIVAINKMDSVNYDEEEF  161 (426)
T ss_pred             -eEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHH-HHcC-CCeEEEEEEChhccCccHHHH
Confidence             789999999998886666667789999999999998743211  11111222 2222 3578999999999642211  


Q ss_pred             --CHHHHHHHHHHhC-----CcEEEEeccCCCCHHHHH
Q 043946          127 --SYETAKAFADEIG-----IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus       127 --~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~~  157 (198)
                        ..+++..+++..+     ++++++||++|.|+.+++
T Consensus       162 ~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       162 EAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence              1345555666655     579999999999998754

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.85  E-value=1.5e-19  Score=123.70  Aligned_cols=154  Identities=21%  Similarity=0.341  Sum_probs=117.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC--------C----cccceeeeEEEEEEECCeEEEEEEEeCCCcccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS--------Y----ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTIT   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~--------~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   69 (198)
                      +..||+|.|+.++||||+++.+........        +    ..+...++....+  . .+..+.++++||++++.-+|
T Consensus         9 ~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~--~-~~~~v~LfgtPGq~RF~fm~   85 (187)
T COG2229           9 IETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL--D-EDTGVHLFGTPGQERFKFMW   85 (187)
T ss_pred             cceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE--c-CcceEEEecCCCcHHHHHHH
Confidence            357999999999999999999986542111        1    1122222222222  2 22578999999999999999


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh--CCcEEEEec
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI--GIPFMETSA  147 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~S~  147 (198)
                      .-+++.+.++|+++|.+++..+ +....++.+.....  .|++|++||.|+.+..  +.+++.++....  ..+++++++
T Consensus        86 ~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~--ip~vVa~NK~DL~~a~--ppe~i~e~l~~~~~~~~vi~~~a  160 (187)
T COG2229          86 EILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP--IPVVVAINKQDLFDAL--PPEKIREALKLELLSVPVIEIDA  160 (187)
T ss_pred             HHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC--CCEEEEeeccccCCCC--CHHHHHHHHHhccCCCceeeeec
Confidence            9999999999999999998887 55555555544322  8999999999997664  677777766665  789999999


Q ss_pred             cCCCCHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTAD  163 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~  163 (198)
                      .++++..+.++.+...
T Consensus       161 ~e~~~~~~~L~~ll~~  176 (187)
T COG2229         161 TEGEGARDQLDVLLLK  176 (187)
T ss_pred             ccchhHHHHHHHHHhh
Confidence            9999999999888765

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.85  E-value=1.8e-19  Score=132.62  Aligned_cols=151  Identities=24%  Similarity=0.237  Sum_probs=101.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc-------ccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-------TITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~~~~d   77 (198)
                      +|+++|++|+|||||+++|.+........+..+.+.....+.+++  ..+++||+||.....       ......++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            789999999999999999997653222223333334444555565  689999999964322       22345788999


Q ss_pred             EEEEEEECCChh-hHHHHHHHHHH-----------------------------------------HHHh-----------
Q 043946           78 GIIIVYDVTDQE-SFNNVKQWLNE-----------------------------------------IDRY-----------  104 (198)
Q Consensus        78 ~~i~v~d~~~~~-s~~~~~~~~~~-----------------------------------------~~~~-----------  104 (198)
                      ++++|+|++++. ....+...+..                                         +.++           
T Consensus        80 ~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~  159 (233)
T cd01896          80 LILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIRE  159 (233)
T ss_pred             EEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEcc
Confidence            999999998755 22222222210                                         1111           


Q ss_pred             -----------c--CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          105 -----------A--SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       105 -----------~--~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                                 .  ....|+++|+||+|+.     ..++...++..  ..++++||+++.|++++|+.|.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~-----~~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDLI-----SIEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccCC-----CHHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                       0  1236899999999985     34444444432  4689999999999999999998865

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.84  E-value=7.7e-20  Score=141.94  Aligned_cols=152  Identities=20%  Similarity=0.228  Sum_probs=113.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC-CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------cccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD-SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYYR   74 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   74 (198)
                      ++++++|.||||||||+|.|++. ...-...++++.+.....+.++|  +.+.+.||+|..+....        ....+.
T Consensus       218 ~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~  295 (454)
T COG0486         218 LKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKKAIE  295 (454)
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHHHHH
Confidence            78999999999999999999974 34446677788888888899999  78899999997654332        233578


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      ++|.++||+|++.+.+-.. ...+.    ....+.|+++|.||.|+.......  .   .....+.+++.+|+++|.|++
T Consensus       296 ~ADlvL~v~D~~~~~~~~d-~~~~~----~~~~~~~~i~v~NK~DL~~~~~~~--~---~~~~~~~~~i~iSa~t~~Gl~  365 (454)
T COG0486         296 EADLVLFVLDASQPLDKED-LALIE----LLPKKKPIIVVLNKADLVSKIELE--S---EKLANGDAIISISAKTGEGLD  365 (454)
T ss_pred             hCCEEEEEEeCCCCCchhh-HHHHH----hcccCCCEEEEEechhcccccccc--h---hhccCCCceEEEEecCccCHH
Confidence            8999999999998522111 11111    234578999999999997654311  1   111223468999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 043946          155 QAFMAMTADIKNR  167 (198)
Q Consensus       155 ~~~~~l~~~~~~~  167 (198)
                      .+.+.|.+.+...
T Consensus       366 ~L~~~i~~~~~~~  378 (454)
T COG0486         366 ALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999998888765

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.84  E-value=2.9e-20  Score=148.27  Aligned_cols=152  Identities=20%  Similarity=0.211  Sum_probs=100.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CC-----------------------------CCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YL-----------------------------DSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|++++|||||+++|+...  ..                             ++..+..+.+.....+..++  
T Consensus         6 ~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~--   83 (425)
T PRK12317          6 HLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK--   83 (425)
T ss_pred             EEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC--
Confidence            6899999999999999999997321  11                             11133444444444444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHH-HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc----C
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFN-NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV----V  126 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~----~  126 (198)
                      +.+.+|||||++.+.......+..+|++++|+|++++..+. ....++..+... . ..|+++++||+|+.+...    .
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~-~~~iivviNK~Dl~~~~~~~~~~  161 (425)
T PRK12317         84 YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-G-INQLIVAINKMDAVNYDEKRYEE  161 (425)
T ss_pred             eEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-C-CCeEEEEEEccccccccHHHHHH
Confidence            78999999999887655555678899999999998731111 112222223222 2 246899999999965221    1


Q ss_pred             CHHHHHHHHHHhC-----CcEEEEeccCCCCHHHHHH
Q 043946          127 SYETAKAFADEIG-----IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       127 ~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~~~  158 (198)
                      ..+++..++...+     ++++++||++|.|+++..+
T Consensus       162 ~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        162 VKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             HHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            1234555555555     4689999999999997553

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.84  E-value=2.7e-21  Score=126.64  Aligned_cols=160  Identities=23%  Similarity=0.382  Sum_probs=116.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |..++|+++|..|+|||++..++.-.... ...|+++  +.+..+...  .+++.+||..|+.+....|.-|+.+.|++|
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevv-ttkPtig--fnve~v~yK--NLk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIG--FNVETVPYK--NLKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCC--cCccccccc--cccceeeEccCcccccHHHHHHhcccceEE
Confidence            35689999999999999998887655443 3344444  333344333  489999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHH-----HHHhCCcEEEEeccCCCCHH
Q 043946           81 IVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAF-----ADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~S~~~~~~i~  154 (198)
                      +|+|.+|++.+.... .++..+.+-...+..+++++||.|.....  ...++...     .+..-..++++||.+|.|++
T Consensus        91 yVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~--t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld  168 (182)
T KOG0072|consen   91 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGAL--TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLD  168 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhh--hHHHHHHHhChHHHhhheeEEEeeccccccCCc
Confidence            999999987665443 34555544444457889999999985432  12222111     11112578999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 043946          155 QAFMAMTADIKNR  167 (198)
Q Consensus       155 ~~~~~l~~~~~~~  167 (198)
                      ++++||.+.+.++
T Consensus       169 ~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  169 PAMDWLQRPLKSR  181 (182)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999988653

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.84  E-value=1.4e-19  Score=129.56  Aligned_cols=146  Identities=16%  Similarity=0.151  Sum_probs=96.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|..++|||||+++|+....                ..+..+..+.+.....  +.....++.++||||+..+.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~--~~~~~~~i~~iDtPG~~~~~   79 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVE--YETANRHYAHVDCPGHADYI   79 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeE--ecCCCeEEEEEECcCHHHHH
Confidence            47999999999999999999975310                0111223333333333  33344678999999998887


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHhC---
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEIG---  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~---  139 (198)
                      ......+..+|++++|+|+..+-.- .....+..+..   .+.| +++++||+|+......   ..+++.++....+   
T Consensus        80 ~~~~~~~~~~D~~ilVvda~~g~~~-~~~~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~  155 (195)
T cd01884          80 KNMITGAAQMDGAILVVSATDGPMP-QTREHLLLARQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDG  155 (195)
T ss_pred             HHHHHHhhhCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccc
Confidence            7677788899999999999864321 12223333333   2566 7789999998642221   1234555555443   


Q ss_pred             --CcEEEEeccCCCCHH
Q 043946          140 --IPFMETSAKDSLNVE  154 (198)
Q Consensus       140 --~~~~~~S~~~~~~i~  154 (198)
                        ++++++||++|.++.
T Consensus       156 ~~v~iipiSa~~g~n~~  172 (195)
T cd01884         156 DNTPIVRGSALKALEGD  172 (195)
T ss_pred             cCCeEEEeeCccccCCC
Confidence              679999999998853

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.83  E-value=1e-19  Score=127.37  Aligned_cols=150  Identities=20%  Similarity=0.272  Sum_probs=97.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc----------ccccccccc-
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER----------FRTITSSYY-   73 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~~~~~-   73 (198)
                      .|+++|.+|+|||||++.+.+........++.+.+.....+..++   .+.+||+||...          +......++ 
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999996554444444544444444444443   789999999432          222222333 


Q ss_pred             --cCccEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHH--HhCCcEEEE
Q 043946           74 --RGAHGIIIVYDVTDQES--FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETAKAFAD--EIGIPFMET  145 (198)
Q Consensus        74 --~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~--~~~~~~~~~  145 (198)
                        ...+++++++|..+...  ...+..|+..      .+.|+++++||+|+.......  ........+  ....+++++
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  151 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILF  151 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEE
Confidence              34678999999986532  2223333322      257999999999985432211  122222222  233588999


Q ss_pred             eccCCCCHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.++++++++|.+.
T Consensus       152 Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         152 SSLKGQGIDELRALIEKW  169 (170)
T ss_pred             ecCCCCCHHHHHHHHHHh
Confidence            999999999999999865

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.83  E-value=2.5e-19  Score=146.84  Aligned_cols=158  Identities=17%  Similarity=0.199  Sum_probs=102.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC------CeE-----E-----EEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD------GKT-----V-----KLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~------~~~-----~-----~~~i~D~~g~~~~   65 (198)
                      ++..|+++|++++|||||+++|.+...........+.+.....+...      +..     .     .+.+|||||++.|
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f   84 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAF   84 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHH
Confidence            46789999999999999999998765433322222222211111110      110     1     2689999999999


Q ss_pred             cccccccccCccEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC------------CHH-
Q 043946           66 RTITSSYYRGAHGIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV------------SYE-  129 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~------------~~~-  129 (198)
                      ..++...+..+|++++|+|+++   ++++..+..    +.   ..+.|+++++||+|+......            ... 
T Consensus        85 ~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~---~~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~  157 (586)
T PRK04004         85 TNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LK---RRKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQR  157 (586)
T ss_pred             HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HH---HcCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHH
Confidence            9888888899999999999997   455443322    22   236899999999998521100            000 


Q ss_pred             ----------HHHHHHHHh---------------CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          130 ----------TAKAFADEI---------------GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       130 ----------~~~~~~~~~---------------~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                                ++.......               .++++++||.+|.|++++++.+.....+
T Consensus       158 v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~~~  219 (586)
T PRK04004        158 VQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLAQR  219 (586)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHHHH
Confidence                      011111111               2578999999999999999998755433

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.83  E-value=5.7e-20  Score=123.07  Aligned_cols=135  Identities=24%  Similarity=0.316  Sum_probs=97.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----cccccccccccCccEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----RFRTITSSYYRGAHGII   80 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~~~d~~i   80 (198)
                      ||+++|+.|||||||+++|.+...  .+..|....+       .+     .++||||.-    .+.........++|.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~-------~~-----~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEY-------YD-----NTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEe-------cc-----cEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999998654  3334432222       21     346999842    34444555667899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|.|++++.+... ..+...+      +.|+|-|+||+|+... ....+..+++.+..|+ .+|++|+.+|+|++++.++
T Consensus        69 ll~dat~~~~~~p-P~fa~~f------~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~  140 (143)
T PF10662_consen   69 LLQDATEPRSVFP-PGFASMF------NKPVIGVITKIDLPSD-DANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDY  140 (143)
T ss_pred             EEecCCCCCccCC-chhhccc------CCCEEEEEECccCccc-hhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHH
Confidence            9999998653110 1121112      5799999999999732 2356777788888887 6799999999999999999


Q ss_pred             HH
Q 043946          160 MT  161 (198)
Q Consensus       160 l~  161 (198)
                      |.
T Consensus       141 L~  142 (143)
T PF10662_consen  141 LE  142 (143)
T ss_pred             Hh
Confidence            75

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.83  E-value=7.5e-20  Score=132.73  Aligned_cols=147  Identities=25%  Similarity=0.240  Sum_probs=94.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--CCC-----------------------------CCcccceeeeEEEEEEECCeEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--YLD-----------------------------SYISTIGVDFKIRTVEQDGKTVK   53 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   53 (198)
                      ||+++|++|+|||||+++|+...  ...                             +..+..+.+.....+...+  .+
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~--~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPK--RK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCC--ce
Confidence            68999999999999999997422  110                             0012333333344444444  57


Q ss_pred             EEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC----CHH
Q 043946           54 LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV----SYE  129 (198)
Q Consensus        54 ~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~----~~~  129 (198)
                      +.+|||||++.+.......+..+|++|+|+|++++..-.. ......+... . ..++++|+||+|+.+....    ...
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~-~-~~~iIvviNK~D~~~~~~~~~~~i~~  155 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLL-G-IRHVVVAVNKMDLVDYSEEVFEEIVA  155 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHc-C-CCcEEEEEEchhcccCCHHHHHHHHH
Confidence            8899999998876556667889999999999987532111 1222222222 1 2357888999998643211    122


Q ss_pred             HHHHHHHHhCC---cEEEEeccCCCCHHHH
Q 043946          130 TAKAFADEIGI---PFMETSAKDSLNVEQA  156 (198)
Q Consensus       130 ~~~~~~~~~~~---~~~~~S~~~~~~i~~~  156 (198)
                      ++..+...++.   +++++||++|.|+.+.
T Consensus       156 ~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         156 DYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            34445555553   5899999999998754

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>PRK10218 GTP-binding protein; Provisional

Probab=99.83  E-value=5.5e-19  Score=144.84  Aligned_cols=160  Identities=14%  Similarity=0.187  Sum_probs=108.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCCCC------------cccceeeeEEEEEEECCeEEEEEEEeCCCcccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLDSY------------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT   67 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   67 (198)
                      ..-+|+++|+.++|||||+++|+.  +.+....            ....+.+.......+....+++.+||+||+.++..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            345899999999999999999986  3332211            11233444444444444458999999999999998


Q ss_pred             cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHH-------hC
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFADE-------IG  139 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~-------~~  139 (198)
                      .+..++..+|++|+|+|+.+...... ..++..+..   .++|.++++||+|+...+.. ..+++..+...       ..
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~  159 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLD  159 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccC
Confidence            89999999999999999987533222 223332322   36899999999998754311 12333333322       23


Q ss_pred             CcEEEEeccCCC----------CHHHHHHHHHHHHH
Q 043946          140 IPFMETSAKDSL----------NVEQAFMAMTADIK  165 (198)
Q Consensus       140 ~~~~~~S~~~~~----------~i~~~~~~l~~~~~  165 (198)
                      ++++.+|+++|.          ++..+|+.|.+.+.
T Consensus       160 ~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        160 FPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             CCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            679999999998          57777777666554

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.83  E-value=1.6e-19  Score=148.08  Aligned_cols=155  Identities=16%  Similarity=0.249  Sum_probs=109.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc--CCCCCC--------------CcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD--DSYLDS--------------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI   68 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~--~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   68 (198)
                      +|+|+|+.++|||||+++|+.  +.+...              .....+.......+.+.+  +++.+|||||+.+|...
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~--~kinlIDTPGh~DF~~e   80 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNG--TKINIVDTPGHADFGGE   80 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECC--EEEEEEECCCHHHHHHH
Confidence            689999999999999999985  222211              112233333334455554  88999999999999888


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHH-------HhCC
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFAD-------EIGI  140 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~-------~~~~  140 (198)
                      ...++..+|++++|+|+.+.. ......|+..+..   .++|+++++||+|+.+.+.. ..+++..++.       ...+
T Consensus        81 v~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~  156 (594)
T TIGR01394        81 VERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDF  156 (594)
T ss_pred             HHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccC
Confidence            899999999999999998742 2333445544433   36899999999998654311 1233333332       2346


Q ss_pred             cEEEEeccCCC----------CHHHHHHHHHHHHH
Q 043946          141 PFMETSAKDSL----------NVEQAFMAMTADIK  165 (198)
Q Consensus       141 ~~~~~S~~~~~----------~i~~~~~~l~~~~~  165 (198)
                      +++.+||++|.          |+..+|+.|.+.+.
T Consensus       157 pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       157 PIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             cEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            89999999996          79899988887664

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.83  E-value=2.3e-19  Score=147.70  Aligned_cols=155  Identities=17%  Similarity=0.151  Sum_probs=105.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc---CCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD---DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      -|+++|..++|||||+++|.+   ..+.++....++.+.....+...+. ..+.+||+||++.+.......+..+|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g-~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG-RVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCC-cEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            588999999999999999985   3334444445554444444433322 458999999999887666777889999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC--CHHHHHHHHHHhC---CcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV--SYETAKAFADEIG---IPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~---~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++-.-. ..+.+..+...   +.| +++|+||+|+.+....  ..+++.++....+   ++++++|+++|.|+++
T Consensus        81 VVda~eg~~~q-T~ehl~il~~l---gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~  156 (614)
T PRK10512         81 VVACDDGVMAQ-TREHLAILQLT---GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDA  156 (614)
T ss_pred             EEECCCCCcHH-HHHHHHHHHHc---CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHH
Confidence            99998732111 12222223222   455 5789999999653221  1234444544444   6899999999999999


Q ss_pred             HHHHHHHHH
Q 043946          156 AFMAMTADI  164 (198)
Q Consensus       156 ~~~~l~~~~  164 (198)
                      ++++|.+..
T Consensus       157 L~~~L~~~~  165 (614)
T PRK10512        157 LREHLLQLP  165 (614)
T ss_pred             HHHHHHHhh
Confidence            999997654

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.82  E-value=1.1e-19  Score=143.84  Aligned_cols=160  Identities=19%  Similarity=0.217  Sum_probs=103.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC---CCCcccceeeeEEEE--------------EEE----CC------eEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL---DSYISTIGVDFKIRT--------------VEQ----DG------KTVKLQ   55 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~--------------~~~----~~------~~~~~~   55 (198)
                      .++|+++|..++|||||+++|.+....   ++.....+.......              +..    ++      ....+.
T Consensus         4 ~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   83 (406)
T TIGR03680         4 EVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVS   83 (406)
T ss_pred             eEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEEE
Confidence            589999999999999999999753211   111111111111000              001    11      135799


Q ss_pred             EEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHH
Q 043946           56 IWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKA  133 (198)
Q Consensus        56 i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~  133 (198)
                      +||+||++.+...+......+|++++|+|++++.........+..+... . ..|+++++||+|+.+....  ..+++.+
T Consensus        84 liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~-g-i~~iIVvvNK~Dl~~~~~~~~~~~~i~~  161 (406)
T TIGR03680        84 FVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII-G-IKNIVIVQNKIDLVSKEKALENYEEIKE  161 (406)
T ss_pred             EEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc-C-CCeEEEEEEccccCCHHHHHHHHHHHHh
Confidence            9999999999877777888899999999999643111112222223222 1 2478999999999753211  1233444


Q ss_pred             HHHHh---CCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          134 FADEI---GIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       134 ~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +....   +++++++||++|.|+++++++|...+
T Consensus       162 ~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       162 FVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             hhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            44333   56899999999999999999998755

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.82  E-value=1.4e-18  Score=136.76  Aligned_cols=156  Identities=19%  Similarity=0.180  Sum_probs=123.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC-eEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-KTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +..=|++||+...|||||+..+-..+....-.-.++.+.....+..+. ..-.+.++||||++.|..++.+-..-+|++|
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            455689999999999999999998887776667777777777776652 2247899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC---------CcEEEEeccCCC
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG---------IPFMETSAKDSL  151 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~S~~~~~  151 (198)
                      +|++++|.-.    .+..+.+......+.|+++++||+|.++.   .+.....-...++         ..++++||++|.
T Consensus        84 LVVa~dDGv~----pQTiEAI~hak~a~vP~iVAiNKiDk~~~---np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~  156 (509)
T COG0532          84 LVVAADDGVM----PQTIEAINHAKAAGVPIVVAINKIDKPEA---NPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGE  156 (509)
T ss_pred             EEEEccCCcc----hhHHHHHHHHHHCCCCEEEEEecccCCCC---CHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCC
Confidence            9999998533    44455555666678999999999999854   3444444444444         368999999999


Q ss_pred             CHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADI  164 (198)
Q Consensus       152 ~i~~~~~~l~~~~  164 (198)
                      |++++++.+.-..
T Consensus       157 Gi~eLL~~ill~a  169 (509)
T COG0532         157 GIDELLELILLLA  169 (509)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999876444

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.81  E-value=2.6e-19  Score=141.72  Aligned_cols=160  Identities=20%  Similarity=0.251  Sum_probs=101.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC---CCCCcccceeeeEEEEEEE--------------C------C----eEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY---LDSYISTIGVDFKIRTVEQ--------------D------G----KTVKL   54 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~---~~~~~~~~~~~~~~~~~~~--------------~------~----~~~~~   54 (198)
                      ..++|+++|+.++|||||+.+|.+...   .++.....+.......+.+              .      +    ....+
T Consensus         8 ~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   87 (411)
T PRK04000          8 PEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRV   87 (411)
T ss_pred             CcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccEE
Confidence            468999999999999999999964211   1111122222221111111              0      0    02578


Q ss_pred             EEEeCCCcccccccccccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHH
Q 043946           55 QIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETA  131 (198)
Q Consensus        55 ~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~  131 (198)
                      .+||+||++.+..........+|++++|+|+.++. ...... .+..+... . ..|+++|+||+|+.+....  ..+++
T Consensus        88 ~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~-~l~~l~~~-~-i~~iiVVlNK~Dl~~~~~~~~~~~~i  164 (411)
T PRK04000         88 SFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKE-HLMALDII-G-IKNIVIVQNKIDLVSKERALENYEQI  164 (411)
T ss_pred             EEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHH-HHHHHHHc-C-CCcEEEEEEeeccccchhHHHHHHHH
Confidence            99999999888665555667789999999999643 111111 12222222 1 2478999999999754321  12334


Q ss_pred             HHHHHHh---CCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          132 KAFADEI---GIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       132 ~~~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ..++...   +.+++++||++|.|+++++++|.+.+
T Consensus       165 ~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        165 KEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            4444332   46899999999999999999988765

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.81  E-value=2.7e-19  Score=130.77  Aligned_cols=146  Identities=18%  Similarity=0.196  Sum_probs=93.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--CC-----------------------------CCCcccceeeeEEEEEEECCeEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--YL-----------------------------DSYISTIGVDFKIRTVEQDGKTVK   53 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~   53 (198)
                      +|+++|+.++|||||+.+|+...  ..                             .+.....+.+.....+...+  .+
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~--~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEK--YR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCC--eE
Confidence            58999999999999999996321  10                             01112233333444454544  78


Q ss_pred             EEEEeCCCcccccccccccccCccEEEEEEECCChhh---H---HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC--c
Q 043946           54 LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQES---F---NNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK--V  125 (198)
Q Consensus        54 ~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~--~  125 (198)
                      +.+||+||+..+...+...+..+|++|+|+|++++..   +   ......+......  ...|+++++||+|+....  .
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~~  156 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWSE  156 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEccccccccccH
Confidence            9999999988776666677888999999999988421   1   1112222222221  136899999999997321  1


Q ss_pred             CC----HHHHHHHHHHhC-----CcEEEEeccCCCCHH
Q 043946          126 VS----YETAKAFADEIG-----IPFMETSAKDSLNVE  154 (198)
Q Consensus       126 ~~----~~~~~~~~~~~~-----~~~~~~S~~~~~~i~  154 (198)
                      ..    .+++.......+     ++++++||++|.|++
T Consensus       157 ~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         157 ERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            11    123333344443     569999999999987

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.80  E-value=1.8e-18  Score=135.82  Aligned_cols=154  Identities=20%  Similarity=0.135  Sum_probs=125.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ++.-|.|||....|||||+.+|-+.+......-+++..+....+.++.+ -+++|.||||+..|..++.+-..-+|++++
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G-~~iTFLDTPGHaAF~aMRaRGA~vtDIvVL  230 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG-KSITFLDTPGHAAFSAMRARGANVTDIVVL  230 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCC-CEEEEecCCcHHHHHHHHhccCccccEEEE
Confidence            4567899999999999999999988777666667777777777777744 789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC---------CcEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG---------IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~S~~~~~~  152 (198)
                      |+.++|.-.    .+..+.+......+.|+++.+||+|.++.   +.+.+.+....++         +.++++||++|.|
T Consensus       231 VVAadDGVm----pQT~EaIkhAk~A~VpiVvAinKiDkp~a---~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~n  303 (683)
T KOG1145|consen  231 VVAADDGVM----PQTLEAIKHAKSANVPIVVAINKIDKPGA---NPEKVKRELLSQGIVVEDLGGDVQVIPISALTGEN  303 (683)
T ss_pred             EEEccCCcc----HhHHHHHHHHHhcCCCEEEEEeccCCCCC---CHHHHHHHHHHcCccHHHcCCceeEEEeecccCCC
Confidence            999998543    45555566667779999999999998754   4555555444444         4689999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          153 VEQAFMAMTAD  163 (198)
Q Consensus       153 i~~~~~~l~~~  163 (198)
                      ++.+-+.+.-.
T Consensus       304 l~~L~eaill~  314 (683)
T KOG1145|consen  304 LDLLEEAILLL  314 (683)
T ss_pred             hHHHHHHHHHH
Confidence            99999887643

>cd04167 Snu114p Snu114p subfamily

Probab=99.80  E-value=8.5e-19  Score=127.72  Aligned_cols=113  Identities=22%  Similarity=0.250  Sum_probs=78.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCC-------------------CcccceeeeEEEEEEE---CCeEEEEEEEeCCCc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDS-------------------YISTIGVDFKIRTVEQ---DGKTVKLQIWDTAGQ   62 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~-------------------~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~   62 (198)
                      +|+++|+.++|||||+++|+.......                   .....+.......+.+   ++..+.+.+||+||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            589999999999999999986432211                   0011111112222222   345688999999999


Q ss_pred             ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      ..+......++..+|++++|+|+.+..+... ..++.....   .+.|+++++||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9888778888999999999999987655432 333333322   358999999999975

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.80  E-value=2.1e-18  Score=127.50  Aligned_cols=155  Identities=19%  Similarity=0.261  Sum_probs=107.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-------ccccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-------FRTITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~~d   77 (198)
                      .|.++|.||+|||||+++|...+..--..+.++.....-++..+.. ..+.+-|.||.-.       .......-+++++
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~  276 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLRHIERCK  276 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeecccc-ceeEeccCccccccccccCcccHHHHHHHHhhc
Confidence            4679999999999999999875433233333333333333333332 3488889999421       2222334567899


Q ss_pred             EEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc-EEEEeccCCC
Q 043946           78 GIIIVYDVTDQ---ESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP-FMETSAKDSL  151 (198)
Q Consensus        78 ~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S~~~~~  151 (198)
                      .++||+|++.+   ..+..+..+..++..+..  .+.|.++|+||+|+++.   ....+.++.+...-+ ++++||++++
T Consensus       277 ~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea---e~~~l~~L~~~lq~~~V~pvsA~~~e  353 (366)
T KOG1489|consen  277 GLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA---EKNLLSSLAKRLQNPHVVPVSAKSGE  353 (366)
T ss_pred             eEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH---HHHHHHHHHHHcCCCcEEEeeecccc
Confidence            99999999988   777777777766665533  46899999999998633   233346666666544 8999999999


Q ss_pred             CHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTAD  163 (198)
Q Consensus       152 ~i~~~~~~l~~~  163 (198)
                      |+++++..|.+.
T Consensus       354 gl~~ll~~lr~~  365 (366)
T KOG1489|consen  354 GLEELLNGLREL  365 (366)
T ss_pred             chHHHHHHHhhc
Confidence            999999887653

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.79  E-value=3.1e-18  Score=138.30  Aligned_cols=155  Identities=18%  Similarity=0.217  Sum_probs=117.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc------cccc-c-c
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI------TSSY-Y-R   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~-~-~   74 (198)
                      .++|+++|.||||||||+|+|.+....-...|+.+.+...-.+...+  ..+++.|+||-.+....      ...| + .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~--~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKG--HEIEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecC--ceEEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            46799999999999999999999877777788888777777777777  45889999995443211      1222 2 5


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      +.|++|-|+|+++-+.-..+.-.   +.+.   +.|+++++|++|....+.+ .-+.+++.+..|+|++++||++|.|++
T Consensus        81 ~~D~ivnVvDAtnLeRnLyltlQ---LlE~---g~p~ilaLNm~D~A~~~Gi-~ID~~~L~~~LGvPVv~tvA~~g~G~~  153 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLTLQ---LLEL---GIPMILALNMIDEAKKRGI-RIDIEKLSKLLGVPVVPTVAKRGEGLE  153 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHHHH---HHHc---CCCeEEEeccHhhHHhcCC-cccHHHHHHHhCCCEEEEEeecCCCHH
Confidence            57999999999986543333222   2222   7899999999998665433 345677888999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          155 QAFMAMTADIKN  166 (198)
Q Consensus       155 ~~~~~l~~~~~~  166 (198)
                      ++++.+.+....
T Consensus       154 ~l~~~i~~~~~~  165 (653)
T COG0370         154 ELKRAIIELAES  165 (653)
T ss_pred             HHHHHHHHhccc
Confidence            999998865544

>PRK12736 elongation factor Tu; Reviewed

Probab=99.79  E-value=2.4e-18  Score=135.83  Aligned_cols=155  Identities=18%  Similarity=0.167  Sum_probs=99.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|+.++|||||+++|++...                ..+.....+.+.  ....+......+.++|+||+++|.
T Consensus        12 ~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~--~~~~~~~~~~~i~~iDtPGh~~f~   89 (394)
T PRK12736         12 HVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINT--AHVEYETEKRHYAHVDCPGHADYV   89 (394)
T ss_pred             eeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEE--EeeEecCCCcEEEEEECCCHHHHH
Confidence            58899999999999999999975210                111122333333  333444444678999999998887


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcCC---HHHHHHHHHHhC---
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVVS---YETAKAFADEIG---  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~~---~~~~~~~~~~~~---  139 (198)
                      ......+..+|++++|+|+.+...... ..++..+...   +.| +++++||+|+.+.....   .+++..++...+   
T Consensus        90 ~~~~~~~~~~d~~llVvd~~~g~~~~t-~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~  165 (394)
T PRK12736         90 KNMITGAAQMDGAILVVAATDGPMPQT-REHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPG  165 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCc
Confidence            666666788999999999987422221 2223333332   577 67889999986432221   234455555554   


Q ss_pred             --CcEEEEeccCCC--------CHHHHHHHHHHH
Q 043946          140 --IPFMETSAKDSL--------NVEQAFMAMTAD  163 (198)
Q Consensus       140 --~~~~~~S~~~~~--------~i~~~~~~l~~~  163 (198)
                        ++++++|+++|.        ++.++++.|.+.
T Consensus       166 ~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~  199 (394)
T PRK12736        166 DDIPVIRGSALKALEGDPKWEDAIMELMDAVDEY  199 (394)
T ss_pred             CCccEEEeeccccccCCCcchhhHHHHHHHHHHh
Confidence              579999999983        455555555544

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.79  E-value=4.6e-18  Score=125.12  Aligned_cols=160  Identities=16%  Similarity=0.148  Sum_probs=105.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc------------cccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF------------RTIT   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------------~~~~   69 (198)
                      +.++|+|+|+||||||||.|.+++.+.........+++....-+... +..++.++||||.-.-            ...-
T Consensus        71 k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts-~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~  149 (379)
T KOG1423|consen   71 KSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITS-GETQLVFYDTPGLVSKKMHRRHHLMMSVLQNP  149 (379)
T ss_pred             eEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEec-CceEEEEecCCcccccchhhhHHHHHHhhhCH
Confidence            46899999999999999999999988876665555544444443333 3479999999994311            1122


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC-------------cCCHHHHHHHHH
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK-------------VVSYETAKAFAD  136 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~-------------~~~~~~~~~~~~  136 (198)
                      ...+..+|.+++|+|+++.....+ .+.+..+..+.  +.|-++|.||.|.....             .+.....+-..+
T Consensus       150 ~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys--~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~  226 (379)
T KOG1423|consen  150 RDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS--KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEK  226 (379)
T ss_pred             HHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh--cCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHHHH
Confidence            335678999999999996332111 22333344442  67999999999985321             111111111111


Q ss_pred             HhCC----------------cEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          137 EIGI----------------PFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       137 ~~~~----------------~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ....                .+|.+||++|+|++++-+||+..+.
T Consensus       227 f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  227 FTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             hccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence            1122                3899999999999999999987654

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.78  E-value=5.7e-18  Score=118.45  Aligned_cols=154  Identities=19%  Similarity=0.255  Sum_probs=106.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTITSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~~~   72 (198)
                      ...|+++|.+|||||||||+|++++.......+.|.+.....+.+++.   +.++|.||-.          .+..+...|
T Consensus        24 ~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~~Y  100 (200)
T COG0218          24 LPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIEEY  100 (200)
T ss_pred             CcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHHHH
Confidence            467999999999999999999997744455566677777777777764   7889999932          223333344


Q ss_pred             cc---CccEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC----Cc--
Q 043946           73 YR---GAHGIIIVYDVTDQESF--NNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG----IP--  141 (198)
Q Consensus        73 ~~---~~d~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~----~~--  141 (198)
                      ++   +..++++++|+..+-.-  ..+.+|+.      ..+.|+++++||+|.....+. ...+....+...    ..  
T Consensus       101 L~~R~~L~~vvlliD~r~~~~~~D~em~~~l~------~~~i~~~vv~tK~DKi~~~~~-~k~l~~v~~~l~~~~~~~~~  173 (200)
T COG0218         101 LEKRANLKGVVLLIDARHPPKDLDREMIEFLL------ELGIPVIVVLTKADKLKKSER-NKQLNKVAEELKKPPPDDQW  173 (200)
T ss_pred             HhhchhheEEEEEEECCCCCcHHHHHHHHHHH------HcCCCeEEEEEccccCChhHH-HHHHHHHHHHhcCCCCccce
Confidence            42   36789999998764332  12233332      238999999999998764332 222333333332    12  


Q ss_pred             EEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          142 FMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       142 ~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++..|+.++.|++++...|.+.+..
T Consensus       174 ~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         174 VVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             EEEEecccccCHHHHHHHHHHHhhc
Confidence            7888999999999999998887754

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.78  E-value=1.1e-17  Score=122.21  Aligned_cols=152  Identities=18%  Similarity=0.190  Sum_probs=94.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcc----------------c-------ceeeeE---------------EEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYIS----------------T-------IGVDFK---------------IRTVE   46 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~----------------~-------~~~~~~---------------~~~~~   46 (198)
                      ||+++|+.++|||||+++|....+......                +       .+.+..               ...+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            689999999999999999986544321110                0       000000               01111


Q ss_pred             ECCeEEEEEEEeCCCcccccccccccc--cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           47 QDGKTVKLQIWDTAGQERFRTITSSYY--RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        47 ~~~~~~~~~i~D~~g~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      ..  ...+.++|+||++.+.......+  ..+|++++|+|+..+..- ....++..+..   .++|+++++||+|+.+..
T Consensus        81 ~~--~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~-~d~~~l~~l~~---~~ip~ivvvNK~D~~~~~  154 (224)
T cd04165          81 KS--SKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIG-MTKEHLGLALA---LNIPVFVVVTKIDLAPAN  154 (224)
T ss_pred             eC--CcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCEEEEEECccccCHH
Confidence            22  25789999999988754444334  378999999998765331 11223333333   368999999999986432


Q ss_pred             cCC--HHHHHHHHHH--------------------------hCCcEEEEeccCCCCHHHHHHHHHH
Q 043946          125 VVS--YETAKAFADE--------------------------IGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       125 ~~~--~~~~~~~~~~--------------------------~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      ...  .+++.+..+.                          ..++++.+|+.+|.|++++...|..
T Consensus       155 ~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         155 ILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            211  1222222221                          1248999999999999999988743

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>COG2262 HflX GTPases [General function prediction only]

Probab=99.78  E-value=1.3e-17  Score=127.50  Aligned_cols=161  Identities=18%  Similarity=0.131  Sum_probs=117.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc--------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--------RTITSSYYR   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~~~~~   74 (198)
                      ...|.++|..|+|||||+|+|.+...........+.+.....+.+++ ...+.+-||.|.-..        .........
T Consensus       192 ~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~  270 (411)
T COG2262         192 IPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVK  270 (411)
T ss_pred             CCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHHHhh
Confidence            45799999999999999999997655444444445556666666664 257888899994321        011222346


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      .+|+++.|+|++++.....+......+.+....+.|+|+|.||+|+.....    .......... ..+.+||++|.|++
T Consensus       271 ~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~  345 (411)
T COG2262         271 EADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTGEGLD  345 (411)
T ss_pred             cCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccCcCHH
Confidence            799999999999998878888888888887666799999999999765432    1111111112 57999999999999


Q ss_pred             HHHHHHHHHHHHhhh
Q 043946          155 QAFMAMTADIKNRMA  169 (198)
Q Consensus       155 ~~~~~l~~~~~~~~~  169 (198)
                      .+++.|.+.+.....
T Consensus       346 ~L~~~i~~~l~~~~~  360 (411)
T COG2262         346 LLRERIIELLSGLRT  360 (411)
T ss_pred             HHHHHHHHHhhhccc
Confidence            999999998875443

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.78  E-value=9.2e-18  Score=123.76  Aligned_cols=128  Identities=13%  Similarity=0.156  Sum_probs=86.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCC--------C----------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYL--------D----------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~--------~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+++|+.|+|||||+++|+...-.        .          +.....+.......+.+.+  .++.+|||||+..+.
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~--~~i~liDTPG~~~f~   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWED--TKVNLIDTPGHMDFI   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECC--EEEEEEeCCCccchH
Confidence            5899999999999999999753110        0          0011122223334444444  789999999999888


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI  140 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~  140 (198)
                      ..+..+++.+|++++|+|+.+.... ....++..+..   .+.|+++++||+|+....  ..+...++...++.
T Consensus        79 ~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~~a~--~~~~~~~i~~~~~~  146 (237)
T cd04168          79 AEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRAGAD--LEKVYQEIKEKLSS  146 (237)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECccccCCC--HHHHHHHHHHHHCC
Confidence            8888899999999999999986442 33444444433   368999999999987543  13344444444553

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.77  E-value=5.5e-18  Score=133.86  Aligned_cols=144  Identities=18%  Similarity=0.198  Sum_probs=94.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC-----C-----------CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD-----S-----------YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~-----~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ..++|+++|..++|||||+++|++.     .           ...+.....+.+.  ..+.++....++.+||+||++.|
T Consensus        11 ~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~--~~~~~~~~~~~~~liDtpGh~~f   88 (394)
T TIGR00485        11 PHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINT--AHVEYETENRHYAHVDCPGHADY   88 (394)
T ss_pred             ceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceee--EEEEEcCCCEEEEEEECCchHHH
Confidence            4689999999999999999999732     0           0111123333333  33444444478999999999988


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCCcCC---HHHHHHHHHHhC--
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL-LVGNKCDLTDKKVVS---YETAKAFADEIG--  139 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-iv~nK~D~~~~~~~~---~~~~~~~~~~~~--  139 (198)
                      ..........+|++++|+|+.++..... .+.+..+..   .+.|.+ +++||+|+.+.....   .+++..++..++  
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~  164 (394)
T TIGR00485        89 VKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFP  164 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            6656666778899999999987422121 222222322   256755 689999986532211   234556666654  


Q ss_pred             ---CcEEEEeccCCC
Q 043946          140 ---IPFMETSAKDSL  151 (198)
Q Consensus       140 ---~~~~~~S~~~~~  151 (198)
                         ++++++|+.++.
T Consensus       165 ~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       165 GDDTPIIRGSALKAL  179 (394)
T ss_pred             ccCccEEECcccccc
Confidence               689999999874

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.77  E-value=2.4e-17  Score=118.61  Aligned_cols=159  Identities=14%  Similarity=0.169  Sum_probs=96.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccce---eeeEEEEEEECCeEEEEEEEeCCCcccccc-----ccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG---VDFKIRTVEQDGKTVKLQIWDTAGQERFRT-----ITSSYYR   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~~   74 (198)
                      +++|+++|.+|+|||||+|.|.+...........+   .+.....+.... ...+.+||+||......     +....+.
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~~l~~~~~~   79 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPK-FPNVTLWDLPGIGSTAFPPDDYLEEMKFS   79 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCC-CCCceEEeCCCCCcccCCHHHHHHHhCcc
Confidence            47999999999999999999997544322222211   111111121111 23689999999653221     1222367


Q ss_pred             CccEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc-----------CCHHHHHHHHH----Hh
Q 043946           75 GAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDKKV-----------VSYETAKAFAD----EI  138 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~-----------~~~~~~~~~~~----~~  138 (198)
                      .+|+++++.+..    +... ..++..+...   +.|+++|+||+|+.....           ...+++.+.+.    ..
T Consensus        80 ~~d~~l~v~~~~----~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~  152 (197)
T cd04104          80 EYDFFIIISSTR----FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEA  152 (197)
T ss_pred             CcCEEEEEeCCC----CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHc
Confidence            789998885421    2222 3344555443   579999999999843211           01112222221    22


Q ss_pred             C---CcEEEEecc--CCCCHHHHHHHHHHHHHHhhh
Q 043946          139 G---IPFMETSAK--DSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       139 ~---~~~~~~S~~--~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      +   -+++.+|+.  .+.++..+.+.|...+.+++.
T Consensus       153 ~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~  188 (197)
T cd04104         153 GVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKR  188 (197)
T ss_pred             CCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence            2   268999998  679999999999999986544

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>PRK12735 elongation factor Tu; Reviewed

Probab=99.77  E-value=8.8e-18  Score=132.67  Aligned_cols=156  Identities=16%  Similarity=0.176  Sum_probs=99.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC-------CC---------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD-------SY---------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~-------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ..++|+++|.+++|||||+++|++.       +.         ..+.....+.+.  ....+.....++.++||||++.|
T Consensus        11 ~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~--~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINT--SHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEE--eeeEEcCCCcEEEEEECCCHHHH
Confidence            3689999999999999999999852       10         111122333333  33333333467899999999887


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCCcC---CHHHHHHHHHHhC--
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL-LVGNKCDLTDKKVV---SYETAKAFADEIG--  139 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-iv~nK~D~~~~~~~---~~~~~~~~~~~~~--  139 (198)
                      .......+..+|++++|+|+.+.... ....++..+..   .++|.+ +++||+|+.+....   ..+++..+...++  
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~~-qt~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~  164 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFP  164 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCch-hHHHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCC
Confidence            66666777889999999999874321 11223333322   357865 57999999643211   1224555555543  


Q ss_pred             ---CcEEEEeccCCC----------CHHHHHHHHHHH
Q 043946          140 ---IPFMETSAKDSL----------NVEQAFMAMTAD  163 (198)
Q Consensus       140 ---~~~~~~S~~~~~----------~i~~~~~~l~~~  163 (198)
                         ++++++|+.+|.          ++.++++.|.+.
T Consensus       165 ~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~  201 (396)
T PRK12735        165 GDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSY  201 (396)
T ss_pred             cCceeEEecchhccccCCCCCcccccHHHHHHHHHhc
Confidence               678999999985          455555555443

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.77  E-value=1.4e-18  Score=137.27  Aligned_cols=162  Identities=26%  Similarity=0.360  Sum_probs=122.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|..|+||||||-.|+...+++...+-.+.-.....+.-+.  +...|.|++..+.-......-++++|++.+|
T Consensus         9 dVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadvtPe~--vpt~ivD~ss~~~~~~~l~~EirkA~vi~lv   86 (625)
T KOG1707|consen    9 DVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADVTPEN--VPTSIVDTSSDSDDRLCLRKEIRKADVICLV   86 (625)
T ss_pred             ceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCccCcCc--CceEEEecccccchhHHHHHHHhhcCEEEEE
Confidence            58999999999999999999999888766655443222223333333  5588899987666555567788999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHH-HHHHHHHhC-C-cEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQ-WLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYET-AKAFADEIG-I-PFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~-~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~-~~~~~~~~~-~-~~~~~S~~~~~~i~~~  156 (198)
                      |+.+++++++.+.. |+..++...+  .++|+|+|+||.|.......+.+. ..-+...+. + ..++|||++-.++.|+
T Consensus        87 yavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~  166 (625)
T KOG1707|consen   87 YAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSEL  166 (625)
T ss_pred             EecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhh
Confidence            99999999999865 8888877653  579999999999997655443333 333333333 3 4799999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          157 FMAMTADIKN  166 (198)
Q Consensus       157 ~~~l~~~~~~  166 (198)
                      |....+.+.-
T Consensus       167 fYyaqKaVih  176 (625)
T KOG1707|consen  167 FYYAQKAVIH  176 (625)
T ss_pred             hhhhhheeec
Confidence            9998777753

>CHL00071 tufA elongation factor Tu

Probab=99.77  E-value=9.3e-18  Score=133.06  Aligned_cols=145  Identities=17%  Similarity=0.126  Sum_probs=95.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|.+++|||||+++|++..-                ..+..+..+.+.....+..  ...++.++|+||+..+.
T Consensus        12 ~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~--~~~~~~~iDtPGh~~~~   89 (409)
T CHL00071         12 HVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYET--ENRHYAHVDCPGHADYV   89 (409)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEcc--CCeEEEEEECCChHHHH
Confidence            58999999999999999999985311                1112233333333333333  33678899999998876


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHhC---
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEIG---  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~---  139 (198)
                      ......+..+|++++|+|+.....- .....+..+..   .++| +++++||+|+.+....   ..+++..+.+..+   
T Consensus        90 ~~~~~~~~~~D~~ilVvda~~g~~~-qt~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~  165 (409)
T CHL00071         90 KNMITGAAQMDGAILVVSAADGPMP-QTKEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPG  165 (409)
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            6666778899999999999864321 12223333322   2578 6788999999753221   1234555555543   


Q ss_pred             --CcEEEEeccCCCCH
Q 043946          140 --IPFMETSAKDSLNV  153 (198)
Q Consensus       140 --~~~~~~S~~~~~~i  153 (198)
                        ++++++|+.+|.++
T Consensus       166 ~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        166 DDIPIVSGSALLALEA  181 (409)
T ss_pred             CcceEEEcchhhcccc
Confidence              67999999998754

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.76  E-value=7.2e-18  Score=122.82  Aligned_cols=159  Identities=20%  Similarity=0.336  Sum_probs=98.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccc--eeeeEEEEEEECCeEEEEEEEeCCCcccccc-----cccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTI--GVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-----ITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~~~~d   77 (198)
                      ||++||+.++||||+.+.+.. .+.+......  +.+.....+.+.+. ..+.+||+||+..+..     .....++++.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~-~~~p~dT~~L~~T~~ve~~~v~~~~~-~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~   78 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFH-KYSPRDTLRLEPTIDVEKSHVRFLSF-LPLNIWDCPGQDDFMENYFNSQREEIFSNVG   78 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS----GGGGGG-----SEEEEEEECTTS-CEEEEEEE-SSCSTTHTTHTCCHHHHHCTES
T ss_pred             CEEEEcCCCCChhhHHHHHHc-CCCchhccccCCcCCceEEEEecCCC-cEEEEEEcCCccccccccccccHHHHHhccC
Confidence            799999999999997766654 3333333322  23334444433332 6899999999875533     3566789999


Q ss_pred             EEEEEEECCChhhHHHH---HHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC------CHHHHHHHHHHhC---CcEEEE
Q 043946           78 GIIIVYDVTDQESFNNV---KQWLNEIDRYASENVNKLLVGNKCDLTDKKVV------SYETAKAFADEIG---IPFMET  145 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~---~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~------~~~~~~~~~~~~~---~~~~~~  145 (198)
                      ++|||+|+.+.+....+   ...+..+.+. .++..+.++++|+|+..+...      ..+.+.+.+...+   +.++.+
T Consensus        79 ~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~-sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~T  157 (232)
T PF04670_consen   79 VLIYVFDAQSDDYDEDLAYLSDCIEALRQY-SPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLT  157 (232)
T ss_dssp             EEEEEEETT-STCHHHHHHHHHHHHHHHHH-STT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE
T ss_pred             EEEEEEEcccccHHHHHHHHHHHHHHHHHh-CCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEec
Confidence            99999999954433444   4444444444 357899999999998643211      1233444444555   779999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHh
Q 043946          146 SAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      |..+. .+-+++..+++.+.-+
T Consensus       158 SI~D~-Sly~A~S~Ivq~LiP~  178 (232)
T PF04670_consen  158 SIWDE-SLYEAWSKIVQKLIPN  178 (232)
T ss_dssp             -TTST-HHHHHHHHHHHTTSTT
T ss_pred             cCcCc-HHHHHHHHHHHHHccc
Confidence            99994 6778888877776543

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=3.6e-18  Score=114.74  Aligned_cols=153  Identities=22%  Similarity=0.287  Sum_probs=115.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      =|++++|-.|+|||||++.|.+.+.. .+.||...+  ...+.+++  .+++-+|.+|+......|..++..+|++++.+
T Consensus        21 gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlHPT--SE~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lv   95 (193)
T KOG0077|consen   21 GKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVYLV   95 (193)
T ss_pred             ceEEEEeecCCchhhHHHHHcccccc-ccCCCcCCC--hHHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEeee
Confidence            37999999999999999999877664 445554322  33455666  78899999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH---HhC--------------CcEEEE
Q 043946           84 DVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFAD---EIG--------------IPFMET  145 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~---~~~--------------~~~~~~  145 (198)
                      |+.|.+.+.+....++.+.... -.+.|+++.+||+|.+...  +.++......   ..+              +.++.+
T Consensus        96 da~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmc  173 (193)
T KOG0077|consen   96 DAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMC  173 (193)
T ss_pred             ehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEE
Confidence            9999998888877666654433 3579999999999987653  3444332211   111              246788


Q ss_pred             eccCCCCHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~  163 (198)
                      |...+.+--+.|.|+.+.
T Consensus       174 si~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  174 SIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEccCccceeeeehhhh
Confidence            999999988888887654

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.76  E-value=1.3e-16  Score=118.49  Aligned_cols=153  Identities=23%  Similarity=0.194  Sum_probs=110.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-------cccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-------RFRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~~~   76 (198)
                      -+++++|+|++|||||++.|.+........+.++.+...-.+...+  .++++.|+||.-       ..........++|
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vlsv~R~A  141 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLSVARNA  141 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeeeeeccC
Confidence            4789999999999999999998655444555556666667777777  789999999832       1234466788999


Q ss_pred             cEEEEEEECCChhh-HHHHHHHHHH-------------------------------------------------------
Q 043946           77 HGIIIVYDVTDQES-FNNVKQWLNE-------------------------------------------------------  100 (198)
Q Consensus        77 d~~i~v~d~~~~~s-~~~~~~~~~~-------------------------------------------------------  100 (198)
                      |++++|+|+....+ .+.+...+..                                                       
T Consensus       142 DlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir  221 (365)
T COG1163         142 DLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIR  221 (365)
T ss_pred             CEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEe
Confidence            99999999986543 4444433322                                                       


Q ss_pred             -------HHHh---cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          101 -------IDRY---ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       101 -------~~~~---~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                             +...   ...-+|.++|+||+|+..     .++...+.+..  .++.+|+.++.|++++.+.|.+.+.
T Consensus       222 ~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         222 EDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             cCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                   0000   111378999999999863     34444444444  7899999999999999999999884

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.75  E-value=1.2e-17  Score=121.67  Aligned_cols=113  Identities=18%  Similarity=0.217  Sum_probs=78.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC--CC--------------CCcccceeeeEEEEEEEC--------CeEEEEEEEeCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY--LD--------------SYISTIGVDFKIRTVEQD--------GKTVKLQIWDTA   60 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~--~~--------------~~~~~~~~~~~~~~~~~~--------~~~~~~~i~D~~   60 (198)
                      +|+++|+.++|||||+++|+...-  ..              +.....+.......+.+.        +..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            689999999999999999974321  10              001112222222233333        336889999999


Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      |+..+.......+..+|++++|+|+.++........    +......++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~----l~~~~~~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETV----LRQALKERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHH----HHHHHHcCCCEEEEEECCCcc
Confidence            999998888899999999999999998654332222    222222368999999999975

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>cd01850 CDC_Septin CDC/Septin

Probab=99.75  E-value=4.9e-17  Score=122.39  Aligned_cols=144  Identities=18%  Similarity=0.259  Sum_probs=94.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC----------CcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc----
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS----------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT----   67 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----   67 (198)
                      ..++|+|+|.+|+|||||+|+|.+..+...          ..++.........+..++..+++.+|||||......    
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            468999999999999999999988765443          233334444555666677778999999999432211    


Q ss_pred             ----------------------ccccccc--CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           68 ----------------------ITSSYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        68 ----------------------~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                                            .+...+.  ++|+++|+++.+... +...  .++.+..... ++|+++|+||+|+...
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~--D~~~lk~l~~-~v~vi~VinK~D~l~~  158 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPL--DIEFMKRLSK-RVNIIPVIAKADTLTP  158 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHH--HHHHHHHHhc-cCCEEEEEECCCcCCH
Confidence                                  1112232  578888888876421 1111  1222333332 6899999999998652


Q ss_pred             C--cCCHHHHHHHHHHhCCcEEEEeccC
Q 043946          124 K--VVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus       124 ~--~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      .  ....+.+.+.+..++++++......
T Consensus       159 ~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         159 EELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            2  2335567777888899988766533

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>cd04169 RF3 RF3 subfamily

Probab=99.75  E-value=5.5e-17  Score=121.55  Aligned_cols=113  Identities=16%  Similarity=0.202  Sum_probs=76.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--CCCC---------------C-----cccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--YLDS---------------Y-----ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~~~~---------------~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      +|+++|++|+|||||+++|+...  ....               +     ....+.......+.+.+  +++.+|||||+
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~--~~i~liDTPG~   81 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRD--CVINLLDTPGH   81 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCC--EEEEEEECCCc
Confidence            68999999999999999997421  1100               0     01112223333444444  88999999999


Q ss_pred             ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      .++.......++.+|++|+|+|+++.... ....++....   ..++|+++++||+|+...
T Consensus        82 ~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~---~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          82 EDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCR---LRGIPIITFINKLDREGR  138 (267)
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHH---hcCCCEEEEEECCccCCC
Confidence            88876667778999999999999875332 2223333332   236899999999998654

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.75  E-value=2e-17  Score=131.00  Aligned_cols=148  Identities=23%  Similarity=0.268  Sum_probs=94.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCC--CCC-------------------------------CCcccceeeeEEEEEEECCe
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDS--YLD-------------------------------SYISTIGVDFKIRTVEQDGK   50 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~--~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   50 (198)
                      +||+++|+.++|||||+.+|+...  ...                               +.....+.+.....+..++ 
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~-   79 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDK-   79 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCC-
Confidence            589999999999999999996321  110                               1111223334444444443 


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH--
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY--  128 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~--  128 (198)
                       .++.++|+||++.|.......+..+|++++|+|+..+..-.. ...+..+... . ..++++++||+|+.+......  
T Consensus        80 -~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt-~~~~~~~~~~-~-~~~iivviNK~D~~~~~~~~~~~  155 (406)
T TIGR02034        80 -RKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQT-RRHSYIASLL-G-IRHVVLAVNKMDLVDYDEEVFEN  155 (406)
T ss_pred             -eEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcccc-HHHHHHHHHc-C-CCcEEEEEEecccccchHHHHHH
Confidence             688999999999886656667889999999999986532211 1122222222 1 236888999999865322111  


Q ss_pred             --HHHHHHHHHhC---CcEEEEeccCCCCHHHH
Q 043946          129 --ETAKAFADEIG---IPFMETSAKDSLNVEQA  156 (198)
Q Consensus       129 --~~~~~~~~~~~---~~~~~~S~~~~~~i~~~  156 (198)
                        +++..+....+   ++++++||++|.|+++.
T Consensus       156 i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       156 IKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             HHHHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence              22223334443   46999999999998863

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.74  E-value=1.5e-17  Score=124.69  Aligned_cols=113  Identities=19%  Similarity=0.175  Sum_probs=80.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--C----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--Y----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+++|++++|||||+++|+...  .                +.+.....+.+.....+.+.+  .++.+|||||+..+.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD--HRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC--EEEEEEECCCcHHHH
Confidence            58999999999999999997311  1                112223344445555666665  789999999998887


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      ..+...++.+|++|+|+|+.+...... ...+..+.   ..++|+++++||+|+.+.
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~---~~~~p~ivviNK~D~~~a  131 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQAD---RYNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHH---HcCCCEEEEEECCCCCCC
Confidence            788889999999999999987532221 22333332   236899999999998753

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.74  E-value=5e-17  Score=129.73  Aligned_cols=147  Identities=18%  Similarity=0.196  Sum_probs=99.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--C-----------------------------CCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--Y-----------------------------LDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|+.++|||||+.+|+...  .                             .++.....+.+.....  +....
T Consensus         7 ~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~--~~~~~   84 (447)
T PLN00043          7 HINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWK--FETTK   84 (447)
T ss_pred             eEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEE--ecCCC
Confidence            5789999999999999999986311  0                             1111122333333333  34444


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHH-------HHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFN-------NVKQWLNEIDRYASENV-NKLLVGNKCDLTDK  123 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~-p~iiv~nK~D~~~~  123 (198)
                      ..+.++|+||+++|.......+..+|++|+|+|+.+. .+.       .....+..+..   .++ ++++++||+|+.+.
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~~~  160 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDATTP  160 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCCch
Confidence            7899999999999988888889999999999999873 221       22222222222   256 46888999998621


Q ss_pred             C--c----CCHHHHHHHHHHhC-----CcEEEEeccCCCCHHH
Q 043946          124 K--V----VSYETAKAFADEIG-----IPFMETSAKDSLNVEQ  155 (198)
Q Consensus       124 ~--~----~~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~  155 (198)
                      .  .    ...+++..+++..+     ++++++|+++|.|+.+
T Consensus       161 ~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        161 KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            1  0    11345666666665     5799999999999864

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.74  E-value=1.5e-17  Score=125.19  Aligned_cols=145  Identities=19%  Similarity=0.277  Sum_probs=92.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCC------------------cccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSY------------------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+++|++|+|||||+++|+...-....                  ....+.......+.+.+  +.+.+|||||+.++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKG--HKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECC--EEEEEEECcCHHHHH
Confidence            5899999999999999999743211000                  01112223334445555  789999999998877


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEE-
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMET-  145 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~-  145 (198)
                      ..+...+..+|++++|+|+++.........| ..+.   ..+.|.++++||+|+....  ..+....+...++.+++.+ 
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~---~~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~  152 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFAD---EAGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQ  152 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHH---HcCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEE
Confidence            7788889999999999999986543322222 2232   2368999999999986542  1233444444555554443 


Q ss_pred             -eccCCCCHHHHH
Q 043946          146 -SAKDSLNVEQAF  157 (198)
Q Consensus       146 -S~~~~~~i~~~~  157 (198)
                       ...++.++..+.
T Consensus       153 ip~~~~~~~~~~v  165 (268)
T cd04170         153 LPIGEGDDFKGVV  165 (268)
T ss_pred             ecccCCCceeEEE
Confidence             344544443333

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.74  E-value=8e-17  Score=119.92  Aligned_cols=158  Identities=20%  Similarity=0.194  Sum_probs=108.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-----ccc----ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-----RTI----TSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~----~~~~~   73 (198)
                      ...|+|.|.||||||||++.+...+..-...|.++-....-.+..++  .+++++||||.=+.     ..+    ..+.-
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~  245 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY--LRIQVIDTPGLLDRPLEERNEIERQAILALR  245 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC--ceEEEecCCcccCCChHHhcHHHHHHHHHHH
Confidence            46799999999999999999998666555556655566666666555  68999999993221     111    11122


Q ss_pred             cCccEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCC
Q 043946           74 RGAHGIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDS  150 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~  150 (198)
                      .-.++++|++|++..  -++..-..++..+.....  .|+++|+||+|..+...  .+++.......+. ....+++..+
T Consensus       246 hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~--~~~~~~~~~~~~~~~~~~~~~~~~  321 (346)
T COG1084         246 HLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEK--LEEIEASVLEEGGEEPLKISATKG  321 (346)
T ss_pred             HhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhH--HHHHHHHHHhhccccccceeeeeh
Confidence            346899999999863  344444556666666554  79999999999875442  3344433444443 4678899999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADIKN  166 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~  166 (198)
                      .+++.+-+.+.....+
T Consensus       322 ~~~d~~~~~v~~~a~~  337 (346)
T COG1084         322 CGLDKLREEVRKTALE  337 (346)
T ss_pred             hhHHHHHHHHHHHhhc
Confidence            9999888877776544

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.74  E-value=3.3e-17  Score=128.77  Aligned_cols=159  Identities=21%  Similarity=0.238  Sum_probs=115.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc--CCCCC-------------CCcccceeeeEEEEE-EECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD--DSYLD-------------SYISTIGVDFKIRTV-EQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~--~~~~~-------------~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .=++.|+.+...|||||..+|+.  +....             +...++++......+ ..++..+.++++||||+.+|.
T Consensus        60 iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs  139 (650)
T KOG0462|consen   60 IRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFS  139 (650)
T ss_pred             ccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCccccc
Confidence            34688999999999999999963  21111             223334433333332 233666899999999999999


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc-CCHHHHHHHHHHhCCcEEEE
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV-VSYETAKAFADEIGIPFMET  145 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~-~~~~~~~~~~~~~~~~~~~~  145 (198)
                      ....+.+..+|++|+|+|++..-..+.+..++..+.    .+..+|.|+||+|++..+. .-..++++.......+++.+
T Consensus       140 ~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~v  215 (650)
T KOG0462|consen  140 GEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE----AGLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYV  215 (650)
T ss_pred             ceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEE
Confidence            999999999999999999998766555555554443    3788999999999987641 11223333333344589999


Q ss_pred             eccCCCCHHHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ||++|.|++++|+.|++.+.
T Consensus       216 SAK~G~~v~~lL~AII~rVP  235 (650)
T KOG0462|consen  216 SAKTGLNVEELLEAIIRRVP  235 (650)
T ss_pred             EeccCccHHHHHHHHHhhCC
Confidence            99999999999999988774

>PLN03126 Elongation factor Tu; Provisional

Probab=99.74  E-value=7.7e-17  Score=129.26  Aligned_cols=144  Identities=17%  Similarity=0.144  Sum_probs=95.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC------CC----------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD------SY----------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|++++|||||+++|+..      ..          .++.....+.+.....+..++  ..+.++|+||++.|.
T Consensus        81 ~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~--~~i~liDtPGh~~f~  158 (478)
T PLN03126         81 HVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETEN--RHYAHVDCPGHADYV  158 (478)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCC--cEEEEEECCCHHHHH
Confidence            588999999999999999999841      11          112223333333333444443  678999999999887


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHh----
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEI----  138 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~----  138 (198)
                      ......+..+|++++|+|+.+...... .+++..+...   ++| +++++||+|+.+....   ..+++..+....    
T Consensus       159 ~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~  234 (478)
T PLN03126        159 KNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPG  234 (478)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCc
Confidence            766777789999999999987533222 3333333332   577 6788999998653221   112444555543    


Q ss_pred             -CCcEEEEeccCCCC
Q 043946          139 -GIPFMETSAKDSLN  152 (198)
Q Consensus       139 -~~~~~~~S~~~~~~  152 (198)
                       .++++++|+.++.+
T Consensus       235 ~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        235 DDIPIISGSALLALE  249 (478)
T ss_pred             CcceEEEEEcccccc
Confidence             46799999998854

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.74  E-value=4.8e-17  Score=130.80  Aligned_cols=151  Identities=23%  Similarity=0.238  Sum_probs=95.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC--CCC-------------------------------CCcccceeeeEEEEEEEC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS--YLD-------------------------------SYISTIGVDFKIRTVEQD   48 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~--~~~-------------------------------~~~~~~~~~~~~~~~~~~   48 (198)
                      ..++|+++|+.++|||||+++|+...  ...                               +.....+.+.....+..+
T Consensus        26 ~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~~  105 (474)
T PRK05124         26 SLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTE  105 (474)
T ss_pred             CceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEeccC
Confidence            36899999999999999999997432  111                               001112233333334333


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH
Q 043946           49 GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY  128 (198)
Q Consensus        49 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~  128 (198)
                        ..++.++||||++.+.......+..+|++++|+|+..+-.-.. ......+... . ..|+++++||+|+.+......
T Consensus       106 --~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt-~~~~~l~~~l-g-~~~iIvvvNKiD~~~~~~~~~  180 (474)
T PRK05124        106 --KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT-RRHSFIATLL-G-IKHLVVAVNKMDLVDYSEEVF  180 (474)
T ss_pred             --CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccc-hHHHHHHHHh-C-CCceEEEEEeeccccchhHHH
Confidence              3688999999998886555556799999999999986432111 1112222222 2 247899999999864322112


Q ss_pred             HH----HHHHHHHh----CCcEEEEeccCCCCHHHHH
Q 043946          129 ET----AKAFADEI----GIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus       129 ~~----~~~~~~~~----~~~~~~~S~~~~~~i~~~~  157 (198)
                      ++    +..+....    .++++++||++|.|++++-
T Consensus       181 ~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        181 ERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             HHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            22    22223333    3679999999999998653

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.73  E-value=9e-17  Score=120.17  Aligned_cols=163  Identities=19%  Similarity=0.199  Sum_probs=108.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-------cccccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-------RFRTITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~~~d   77 (198)
                      -|.++|.|++|||||++.+...+..--..+.++.....-.+.... ...+.+=|.||.-       ........-+.++.
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~-~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~  239 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDG-GESFVVADIPGLIEGASEGVGLGLRFLRHIERTR  239 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecC-CCcEEEecCcccccccccCCCccHHHHHHHHhhh
Confidence            467999999999999999986443323333333333333343322 2457888999932       12222344567899


Q ss_pred             EEEEEEECCChh---hHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc-EEEEeccCCC
Q 043946           78 GIIIVYDVTDQE---SFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP-FMETSAKDSL  151 (198)
Q Consensus        78 ~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S~~~~~  151 (198)
                      ++++|+|++..+   ..........++..+..  .++|.+||+||+|+....+......+.+.+..+.. .+.+|+.++.
T Consensus       240 vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~  319 (369)
T COG0536         240 VLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTRE  319 (369)
T ss_pred             eeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhccc
Confidence            999999998643   46666777777766633  47899999999997654332222233333333432 2229999999


Q ss_pred             CHHHHHHHHHHHHHHhh
Q 043946          152 NVEQAFMAMTADIKNRM  168 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~  168 (198)
                      |+++++..+.+.+.+..
T Consensus       320 g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         320 GLDELLRALAELLEETK  336 (369)
T ss_pred             CHHHHHHHHHHHHHHhh
Confidence            99999999999888765

>PRK00049 elongation factor Tu; Reviewed

Probab=99.73  E-value=1.2e-16  Score=126.17  Aligned_cols=144  Identities=17%  Similarity=0.182  Sum_probs=93.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ..++|+++|..++|||||+++|++...                ..+..+..+.+..  ...+.....++.++||||+..+
T Consensus        11 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~~~i~~iDtPG~~~f   88 (396)
T PRK00049         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTA--HVEYETEKRHYAHVDCPGHADY   88 (396)
T ss_pred             CEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeee--EEEEcCCCeEEEEEECCCHHHH
Confidence            368999999999999999999986210                1111233333333  3334333467889999999887


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCCcC---CHHHHHHHHHHh---
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL-LVGNKCDLTDKKVV---SYETAKAFADEI---  138 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-iv~nK~D~~~~~~~---~~~~~~~~~~~~---  138 (198)
                      .......+..+|++++|+|+.++... ....++..+..   .+.|.+ +++||+|+.+....   ..+++..+....   
T Consensus        89 ~~~~~~~~~~aD~~llVVDa~~g~~~-qt~~~~~~~~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~  164 (396)
T PRK00049         89 VKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFP  164 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCch-HHHHHHHHHHH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCC
Confidence            66666778899999999999874321 12233333333   257876 57999999643221   112344444443   


Q ss_pred             --CCcEEEEeccCCC
Q 043946          139 --GIPFMETSAKDSL  151 (198)
Q Consensus       139 --~~~~~~~S~~~~~  151 (198)
                        .++++++|+.++.
T Consensus       165 ~~~~~iv~iSa~~g~  179 (396)
T PRK00049        165 GDDTPIIRGSALKAL  179 (396)
T ss_pred             ccCCcEEEeeccccc
Confidence              3689999999875

>PLN03127 Elongation factor Tu; Provisional

Probab=99.73  E-value=1.1e-16  Score=127.60  Aligned_cols=155  Identities=17%  Similarity=0.121  Sum_probs=96.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC------C----------CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD------S----------YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ..++|+++|+.++|||||+++|.+.      .          ..++..+..+.+.....++  ....++.++|+||+..+
T Consensus        60 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~--~~~~~i~~iDtPGh~~f  137 (447)
T PLN03127         60 PHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYE--TAKRHYAHVDCPGHADY  137 (447)
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEc--CCCeEEEEEECCCccch
Confidence            3688999999999999999999621      1          1112224444444444443  33468899999999887


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcCCHH----HHHHHHHHh--
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVVSYE----TAKAFADEI--  138 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~~~~----~~~~~~~~~--  138 (198)
                      .......+..+|++++|+|+.+...-. ..+.+..+..   .+.| +++++||+|+.+.... .+    ++.++....  
T Consensus       138 ~~~~~~g~~~aD~allVVda~~g~~~q-t~e~l~~~~~---~gip~iIvviNKiDlv~~~~~-~~~i~~~i~~~l~~~~~  212 (447)
T PLN03127        138 VKNMITGAAQMDGGILVVSAPDGPMPQ-TKEHILLARQ---VGVPSLVVFLNKVDVVDDEEL-LELVEMELRELLSFYKF  212 (447)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHH---cCCCeEEEEEEeeccCCHHHH-HHHHHHHHHHHHHHhCC
Confidence            665555667899999999998643211 1223333322   3678 4678999999753221 22    233333332  


Q ss_pred             ---CCcEEEEecc---CCCC-------HHHHHHHHHHH
Q 043946          139 ---GIPFMETSAK---DSLN-------VEQAFMAMTAD  163 (198)
Q Consensus       139 ---~~~~~~~S~~---~~~~-------i~~~~~~l~~~  163 (198)
                         .++++++|+.   +|.|       +.++++.|.+.
T Consensus       213 ~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~  250 (447)
T PLN03127        213 PGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEY  250 (447)
T ss_pred             CCCcceEEEeccceeecCCCcccccchHHHHHHHHHHh
Confidence               2578888875   4554       55666665544

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.73  E-value=4.2e-17  Score=118.79  Aligned_cols=164  Identities=19%  Similarity=0.220  Sum_probs=108.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEE-EECCeEEEEEEEeCCCccc-------ccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTV-EQDGKTVKLQIWDTAGQER-------FRTITSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~   73 (198)
                      .+++|+++|..|+|||||||+|..+...+...-..+.+...... ..++  ..+.+||+||.++       +......++
T Consensus        38 ~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d~l  115 (296)
T COG3596          38 EPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRDYL  115 (296)
T ss_pred             CceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHHHh
Confidence            36789999999999999999999655443332222222222222 1222  5799999999554       566678889


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC--------cCCHHH----------HHHHH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK--------VVSYET----------AKAFA  135 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~--------~~~~~~----------~~~~~  135 (198)
                      ...|.+++++++.|+.--.....+.+.+...  .+.++++++|.+|...+-        ..+...          +.+++
T Consensus       116 ~~~DLvL~l~~~~draL~~d~~f~~dVi~~~--~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~  193 (296)
T COG3596         116 PKLDLVLWLIKADDRALGTDEDFLRDVIILG--LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLF  193 (296)
T ss_pred             hhccEEEEeccCCCccccCCHHHHHHHHHhc--cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999876433333333333332  247999999999985431        111111          11111


Q ss_pred             HHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          136 DEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       136 ~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      ++ --+++..+.+.++|++++...+++.+......
T Consensus       194 q~-V~pV~~~~~r~~wgl~~l~~ali~~lp~e~rs  227 (296)
T COG3596         194 QE-VKPVVAVSGRLPWGLKELVRALITALPVEARS  227 (296)
T ss_pred             hh-cCCeEEeccccCccHHHHHHHHHHhCcccccc
Confidence            11 13788888999999999999999988744333

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.73  E-value=2e-16  Score=128.37  Aligned_cols=114  Identities=15%  Similarity=0.154  Sum_probs=78.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc--CCCCC----------C-C---------cccceeeeEEEEEEECCeEEEEEEEeCC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD--DSYLD----------S-Y---------ISTIGVDFKIRTVEQDGKTVKLQIWDTA   60 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~--~~~~~----------~-~---------~~~~~~~~~~~~~~~~~~~~~~~i~D~~   60 (198)
                      .-+|+|+|++++|||||+++|+.  +....          . .         ....+.......+.+.+  +.+.+||||
T Consensus        10 ~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~--~~inliDTP   87 (526)
T PRK00741         10 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRD--CLINLLDTP   87 (526)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECC--EEEEEEECC
Confidence            45899999999999999999963  11100          0 0         01112222333444444  789999999


Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      |+.++.......+..+|++|+|+|+.+.... ....++....   ..++|+++++||+|+..
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~---~~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCR---LRDTPIFTFINKLDRDG  145 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHH---hcCCCEEEEEECCcccc
Confidence            9998887777788999999999999875322 1233333332   24789999999999853

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.73  E-value=8.3e-17  Score=128.52  Aligned_cols=148  Identities=18%  Similarity=0.172  Sum_probs=96.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc--CCCC-----------------------------CCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD--DSYL-----------------------------DSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|+.++|||||+.+|+.  +...                             ++.....+.+.....+  ....
T Consensus         7 ~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~--~~~~   84 (446)
T PTZ00141          7 HINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKF--ETPK   84 (446)
T ss_pred             eEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEE--ccCC
Confidence            58899999999999999999974  1111                             1112223333333333  4444


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhh---H---HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC--
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQES---F---NNVKQWLNEIDRYASENVN-KLLVGNKCDLTD--  122 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~--  122 (198)
                      ..+.|+|+||+.+|.......+..+|++++|+|+.....   +   ....+.+..+..+   ++| +|+++||+|...  
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~~iiv~vNKmD~~~~~  161 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVKQMIVCINKMDDKTVN  161 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCCeEEEEEEccccccch
Confidence            789999999999988777788899999999999986421   0   1222333333332   555 678999999532  


Q ss_pred             CCcCC----HHHHHHHHHHhC-----CcEEEEeccCCCCHHH
Q 043946          123 KKVVS----YETAKAFADEIG-----IPFMETSAKDSLNVEQ  155 (198)
Q Consensus       123 ~~~~~----~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~  155 (198)
                      ..+..    .+++..++...+     ++++++|+.+|.|+.+
T Consensus       162 ~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        162 YSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            11111    233444444433     5799999999999864

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.72  E-value=1.9e-16  Score=104.50  Aligned_cols=106  Identities=25%  Similarity=0.219  Sum_probs=69.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc---------ccccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF---------RTITSSYYR   74 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~~~   74 (198)
                      ||+|+|.+|+|||||+|+|.+... .....+..+.......+...+  ..+.++|+||...-         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~--~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNN--KKFILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETT--EEEEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeece--eeEEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            699999999999999999997532 222223333333445556677  45679999995421         112333448


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK  117 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK  117 (198)
                      .+|++++|+|++++.. ......++.+   . .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l---~-~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILREL---K-NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHH---H-TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHH---h-cCCCEEEEEcC
Confidence            8999999999887422 2223333334   2 47899999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PRK13351 elongation factor G; Reviewed

Probab=99.71  E-value=2.6e-16  Score=132.40  Aligned_cols=115  Identities=19%  Similarity=0.281  Sum_probs=82.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC--C------C-----CC-----cccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY--L------D-----SY-----ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~--~------~-----~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ...+|+|+|+.++|||||+++|+...-  .      .     .+     ....+.......+.+.+  ..+.+|||||+.
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~   84 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDN--HRINLIDTPGHI   84 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECC--EEEEEEECCCcH
Confidence            345999999999999999999974211  0      0     00     01122223334455554  789999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ++...+..+++.+|++++|+|++++........| ..+..   .++|+++++||+|+..
T Consensus        85 df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         85 DFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            8888888899999999999999987655443333 22322   3689999999999874

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.70  E-value=5.5e-16  Score=111.54  Aligned_cols=159  Identities=17%  Similarity=0.236  Sum_probs=100.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCc--ccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-----------ccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYI--STIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-----------ITS   70 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   70 (198)
                      ++|+++|.+|||||||+|.+++........  +..+.........+.+  ..+.++||||..+...           ...
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG--RRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC--eEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            589999999999999999999865433221  2223333333444555  5799999999553311           112


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCCCCcC------CHHHHHHHHHHhCCcE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE--NVNKLLVGNKCDLTDKKVV------SYETAKAFADEIGIPF  142 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~iiv~nK~D~~~~~~~------~~~~~~~~~~~~~~~~  142 (198)
                      ......|+++||+++.+ .+- .-...++.+....+.  -.++++++|+.|.......      ....+..+.++.+-.+
T Consensus        79 ~~~~g~~~illVi~~~~-~t~-~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~  156 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTE-EEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRY  156 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCH-HHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeE
Confidence            23467899999999886 221 112233334333331  2588999999997543211      1245566666666666


Q ss_pred             EEEe-----ccCCCCHHHHHHHHHHHHHH
Q 043946          143 METS-----AKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       143 ~~~S-----~~~~~~i~~~~~~l~~~~~~  166 (198)
                      +..+     +..+.+++++++.|.+.+.+
T Consensus       157 ~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         157 VAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             EEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            5555     34577899999998888775

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.70  E-value=1.7e-16  Score=132.15  Aligned_cols=148  Identities=24%  Similarity=0.271  Sum_probs=93.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCCC-------------------------------CcccceeeeEEEEEEECC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLDS-------------------------------YISTIGVDFKIRTVEQDG   49 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~~-------------------------------~~~~~~~~~~~~~~~~~~   49 (198)
                      .++|+++|++++|||||+++|+...  ....                               .....+.+.....+..++
T Consensus        24 ~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~  103 (632)
T PRK05506         24 LLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATPK  103 (632)
T ss_pred             eeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccCC
Confidence            5799999999999999999998532  1100                               001122223333333333


Q ss_pred             eEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHH
Q 043946           50 KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYE  129 (198)
Q Consensus        50 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~  129 (198)
                        .++.++|+||++.+.......+..+|++++|+|+..+..-.. ......+... . ..|+++++||+|+.+......+
T Consensus       104 --~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~-~-~~~iivvvNK~D~~~~~~~~~~  178 (632)
T PRK05506        104 --RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLL-G-IRHVVLAVNKMDLVDYDQEVFD  178 (632)
T ss_pred             --ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHh-C-CCeEEEEEEecccccchhHHHH
Confidence              678899999998876555556889999999999976432111 1222223222 1 2578889999998642211112


Q ss_pred             ----HHHHHHHHhC---CcEEEEeccCCCCHHH
Q 043946          130 ----TAKAFADEIG---IPFMETSAKDSLNVEQ  155 (198)
Q Consensus       130 ----~~~~~~~~~~---~~~~~~S~~~~~~i~~  155 (198)
                          ++.++....+   ++++++||++|.|+.+
T Consensus       179 ~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        179 EIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence                2333334444   4689999999999874

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.69  E-value=5.2e-16  Score=118.55  Aligned_cols=81  Identities=22%  Similarity=0.267  Sum_probs=52.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEE--EEEE-------------------ECC-eEEEEEEEeCCCc-
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKI--RTVE-------------------QDG-KTVKLQIWDTAGQ-   62 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~--~~~~-------------------~~~-~~~~~~i~D~~g~-   62 (198)
                      |+++|.|+||||||+|+|.+........|..+.+...  ..+.                   .++ ..+.+++||+||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            5799999999999999999865432222222212211  1110                   122 3367999999996 


Q ss_pred             ---ccccccccc---cccCccEEEEEEECC
Q 043946           63 ---ERFRTITSS---YYRGAHGIIIVYDVT   86 (198)
Q Consensus        63 ---~~~~~~~~~---~~~~~d~~i~v~d~~   86 (198)
                         +....+...   .++++|++++|+|+.
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               333333333   489999999999997

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.69  E-value=2.4e-16  Score=125.70  Aligned_cols=160  Identities=13%  Similarity=0.201  Sum_probs=100.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC---CCCCCcccceeeeEEEEE---------------EECC---------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS---YLDSYISTIGVDFKIRTV---------------EQDG---------------   49 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~---~~~~~~~~~~~~~~~~~~---------------~~~~---------------   49 (198)
                      .++|.++|....|||||+++|.+..   +.++-....+.+.....+               ..+.               
T Consensus        34 ~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (460)
T PTZ00327         34 TINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKM  113 (460)
T ss_pred             cEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccc
Confidence            5789999999999999999998532   222222222211111110               0000               


Q ss_pred             -eEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--
Q 043946           50 -KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--  126 (198)
Q Consensus        50 -~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--  126 (198)
                       ....+.++|+||++.|.......+..+|++++|+|+.++.......+.+..+... . -.|+++++||+|+.+....  
T Consensus       114 ~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l-g-i~~iIVvlNKiDlv~~~~~~~  191 (460)
T PTZ00327        114 TLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM-K-LKHIIILQNKIDLVKEAQAQD  191 (460)
T ss_pred             cccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc-C-CCcEEEEEecccccCHHHHHH
Confidence             0136899999999988776667778999999999998742111112222222222 2 2468899999998743211  


Q ss_pred             CHHHHHHHHHH---hCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          127 SYETAKAFADE---IGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       127 ~~~~~~~~~~~---~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ..+++.++...   ...+++++||++|.|++++++.|.+.+
T Consensus       192 ~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        192 QYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            12233333322   246899999999999999999988644

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.69  E-value=1.2e-16  Score=111.76  Aligned_cols=117  Identities=26%  Similarity=0.382  Sum_probs=71.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEE-CCeEEEEEEEeCCCcccccccccc---cccCccEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQ-DGKTVKLQIWDTAGQERFRTITSS---YYRGAHGI   79 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~---~~~~~d~~   79 (198)
                      -.|+++|++|+|||+|+.+|..+...+.+.+.   +... .+.+ ......+.++|+||+.+.......   +...+.++
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~---e~n~-~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM---ENNI-AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S---SEEE-ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc---cCCc-eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            46899999999999999999988654443333   1111 1222 122246889999999987654433   48889999


Q ss_pred             EEEEECCC-hhhHH-HHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCC
Q 043946           80 IIVYDVTD-QESFN-NVKQWLNEIDRYA--SENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        80 i~v~d~~~-~~s~~-~~~~~~~~~~~~~--~~~~p~iiv~nK~D~~~~~  124 (198)
                      |||+|.+. +..+. .++.++..+....  ....|++|++||.|+....
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            99999984 33333 3444555554333  3578999999999997643

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.69  E-value=1.2e-15  Score=118.40  Aligned_cols=156  Identities=22%  Similarity=0.252  Sum_probs=115.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC--C-------------CCCCcccceee--eEEEEEEE-CCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS--Y-------------LDSYISTIGVD--FKIRTVEQ-DGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~--~-------------~~~~~~~~~~~--~~~~~~~~-~~~~~~~~i~D~~g~~~~~   66 (198)
                      +..++.+-..|||||..||+...  .             .-+...+++..  .....+.. +|..+.+.++||||+-+|.
T Consensus        11 NFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFs   90 (603)
T COG0481          11 NFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFS   90 (603)
T ss_pred             ceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceE
Confidence            56788999999999999996321  1             11222333322  22333333 4577999999999999998


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC---cEE
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI---PFM  143 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~  143 (198)
                      -...+.+..|.++++|+|+++.-..+.+...+..+..    +.-++-|+||+|++..+  ...-..++..-.|+   ..+
T Consensus        91 YEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Ad--pervk~eIe~~iGid~~dav  164 (603)
T COG0481          91 YEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAAD--PERVKQEIEDIIGIDASDAV  164 (603)
T ss_pred             EEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCC--HHHHHHHHHHHhCCCcchhe
Confidence            8889999999999999999998776777776665543    67889999999998754  22222334445565   578


Q ss_pred             EEeccCCCCHHHHHHHHHHHHHH
Q 043946          144 ETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      .+||++|.||+++++.|++.+..
T Consensus       165 ~~SAKtG~gI~~iLe~Iv~~iP~  187 (603)
T COG0481         165 LVSAKTGIGIEDVLEAIVEKIPP  187 (603)
T ss_pred             eEecccCCCHHHHHHHHHhhCCC
Confidence            99999999999999999988754

>PRK12739 elongation factor G; Reviewed

Probab=99.69  E-value=1.3e-15  Score=128.08  Aligned_cols=115  Identities=17%  Similarity=0.151  Sum_probs=83.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC--CC----------------CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS--YL----------------DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~--~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ...+|+|+|++++|||||+++|+...  ..                .+....++.+.....+.+++  .++.++||||+.
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~   84 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGHV   84 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCHH
Confidence            45689999999999999999997421  10                01233445555566666666  789999999998


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      .+...+...+..+|++|+|+|+.+....... ..+..+.   ..++|+++++||+|+..
T Consensus        85 ~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~---~~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         85 DFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQAD---KYGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHH---HcCCCEEEEEECCCCCC
Confidence            8877788889999999999999875432222 2222232   23689999999999864

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.68  E-value=3.2e-16  Score=119.98  Aligned_cols=151  Identities=22%  Similarity=0.270  Sum_probs=101.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC-------------------------------CCCCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD-------------------------------SYLDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++++++|+.++|||||+-+|+..                               +..+++..+.+.+.....++.+.  
T Consensus         7 h~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k--   84 (428)
T COG5256           7 HLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK--   84 (428)
T ss_pred             ceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC--
Confidence            579999999999999999998532                               11222333444444444444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hH--HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SF--NNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~--~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                      +.++|+|+||+.+|-.....-..++|+.|||+|+.+.+   .|  .......-.+.+..+ -..+||++||+|..+-++.
T Consensus        85 ~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~wde~  163 (428)
T COG5256          85 YNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVSWDEE  163 (428)
T ss_pred             ceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccccCHH
Confidence            78999999999999888888889999999999998863   11  111122223334433 2467888899999875443


Q ss_pred             CHHHHHH----HHHHhC-----CcEEEEeccCCCCHHHH
Q 043946          127 SYETAKA----FADEIG-----IPFMETSAKDSLNVEQA  156 (198)
Q Consensus       127 ~~~~~~~----~~~~~~-----~~~~~~S~~~~~~i~~~  156 (198)
                      ..+++..    +.+..+     ++|+++|+.+|.|+.+.
T Consensus       164 rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         164 RFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            3444332    333333     56999999999997643

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.67  E-value=4.3e-16  Score=121.34  Aligned_cols=163  Identities=23%  Similarity=0.266  Sum_probs=108.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-cc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-RT--------ITSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-~~--------~~~~~   72 (198)
                      -++|+|+|+||||||||+|.|..... .-...++++.+.....++++|  +++.+.||+|..+- ..        .-..-
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~  345 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERARKR  345 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHHHH
Confidence            47899999999999999999997543 334556666677777778888  78999999996551 11        12235


Q ss_pred             ccCccEEEEEEEC--CChhhHHHHHHHHHHHHHhcC------CCCcEEEEEeCCCCCCC-CcCCHHHHHHHHHHhC---C
Q 043946           73 YRGAHGIIIVYDV--TDQESFNNVKQWLNEIDRYAS------ENVNKLLVGNKCDLTDK-KVVSYETAKAFADEIG---I  140 (198)
Q Consensus        73 ~~~~d~~i~v~d~--~~~~s~~~~~~~~~~~~~~~~------~~~p~iiv~nK~D~~~~-~~~~~~~~~~~~~~~~---~  140 (198)
                      +.++|++++|+|+  ++-++...+...+........      ...|++++.||.|+... .+... ....+....+   .
T Consensus       346 ~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~-~~~~~~~~~~~~~~  424 (531)
T KOG1191|consen  346 IERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTK-IPVVYPSAEGRSVF  424 (531)
T ss_pred             HhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccC-CceeccccccCccc
Confidence            6789999999999  343333333333333222111      23789999999999754 21211 1111212122   2


Q ss_pred             c-EEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          141 P-FMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       141 ~-~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      + +.++|+++++|++.+.+.|.+.+....
T Consensus       425 ~i~~~vs~~tkeg~~~L~~all~~~~~~~  453 (531)
T KOG1191|consen  425 PIVVEVSCTTKEGCERLSTALLNIVERLV  453 (531)
T ss_pred             ceEEEeeechhhhHHHHHHHHHHHHHHhh
Confidence            3 456999999999999999998887643

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.64  E-value=5e-15  Score=124.52  Aligned_cols=115  Identities=18%  Similarity=0.129  Sum_probs=82.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC--C----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL--D----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   64 (198)
                      .-+|+|+|.+++|||||+++|+...-.  .                +....++.+.....+.+++  .++.+|||||+..
T Consensus        10 irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~liDTPG~~~   87 (689)
T TIGR00484        10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINIIDTPGHVD   87 (689)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEEEECCCCcc
Confidence            458999999999999999999742110  0                0112334444555666665  7899999999988


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      +.......+..+|++++|+|+.+........ ++..+.   ..++|+++++||+|+...
T Consensus        88 ~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~-~~~~~~---~~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        88 FTVEVERSLRVLDGAVAVLDAVGGVQPQSET-VWRQAN---RYEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             hhHHHHHHHHHhCEEEEEEeCCCCCChhHHH-HHHHHH---HcCCCEEEEEECCCCCCC
Confidence            8777888899999999999998854433222 222232   236899999999998754

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>TIGR00503 prfC peptide chain release factor 3

Probab=99.62  E-value=6.5e-15  Score=119.68  Aligned_cols=117  Identities=13%  Similarity=0.139  Sum_probs=77.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCC------C-----Cc-------ccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLD------S-----YI-------STIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~------~-----~~-------~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      +..+|+|+|++++|||||+++|+.  +....      .     ..       ...+.+.......++...+.+.+|||||
T Consensus        10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG   89 (527)
T TIGR00503        10 KRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPG   89 (527)
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCC
Confidence            346899999999999999999863  11110      0     00       0012222222233333448899999999


Q ss_pred             cccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           62 QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      +..+.......+..+|++|+|+|+.+.-. .....++.....   .+.|+++++||+|+..
T Consensus        90 ~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~~  146 (527)
T TIGR00503        90 HEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRDI  146 (527)
T ss_pred             hhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECccccC
Confidence            98887766778899999999999987421 122334443322   3689999999999864

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.62  E-value=1e-14  Score=102.37  Aligned_cols=151  Identities=21%  Similarity=0.252  Sum_probs=101.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccccccccc---CccEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR---GAHGIII   81 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~---~~d~~i~   81 (198)
                      .|+++|+.+||||+|+-.|..+.....+   ..++.....+..+.  ..++++|.||+.+.......++.   .+-++||
T Consensus        40 ~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv---tSiepn~a~~r~gs--~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVF  114 (238)
T KOG0090|consen   40 AVLLVGLSDSGKTSLFTQLITGSHRGTV---TSIEPNEATYRLGS--ENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVF  114 (238)
T ss_pred             cEEEEecCCCCceeeeeehhcCCccCee---eeeccceeeEeecC--cceEEEeCCCcHHHHHHHHHHccccccceeEEE
Confidence            5899999999999999999877543322   22334445555555  34789999999988766656665   7999999


Q ss_pred             EEECCC--hhhHHHHHHHHHHHHHh--cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH---------------------
Q 043946           82 VYDVTD--QESFNNVKQWLNEIDRY--ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD---------------------  136 (198)
Q Consensus        82 v~d~~~--~~s~~~~~~~~~~~~~~--~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~---------------------  136 (198)
                      |+|..-  ++--+..+.++..+...  .....|++|+.||.|+....  +.+.+++..+                     
T Consensus       115 VVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAk--t~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~  192 (238)
T KOG0090|consen  115 VVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAK--TAEKIRQQLEKEIHKLRESRSALRSISDEDI  192 (238)
T ss_pred             EEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcC--cHHHHHHHHHHHHHHHHHHHhhhhccccccc
Confidence            999763  33223334455555444  34568999999999996432  1111111100                     


Q ss_pred             -------------------HhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          137 -------------------EIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       137 -------------------~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                                         ...+.|.+.|++++ +++++-+||.+.
T Consensus       193 ~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  193 AKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             cccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                               11245778899888 899999998764

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.62  E-value=2.5e-14  Score=112.43  Aligned_cols=83  Identities=20%  Similarity=0.253  Sum_probs=54.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEE---------------------EC-CeEEEEEEEeCCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE---------------------QD-GKTVKLQIWDTAG   61 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~-~~~~~~~i~D~~g   61 (198)
                      ++|+++|.||||||||+|+|.+........+..+.+...-...                     .+ .....+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            6899999999999999999997665432223322222221111                     11 1236789999999


Q ss_pred             cc----ccccccccc---ccCccEEEEEEECC
Q 043946           62 QE----RFRTITSSY---YRGAHGIIIVYDVT   86 (198)
Q Consensus        62 ~~----~~~~~~~~~---~~~~d~~i~v~d~~   86 (198)
                      ..    ....+...+   ++++|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            42    222233344   88999999999996

>PRK12740 elongation factor G; Reviewed

Probab=99.61  E-value=1.2e-14  Score=122.23  Aligned_cols=108  Identities=21%  Similarity=0.253  Sum_probs=75.9

Q ss_pred             EcCCCCcHHHHHHHHhcCCCC--C----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccccc
Q 043946            9 IGDSGVGKSCLLLRFADDSYL--D----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         9 ~G~~~~GKStli~~l~~~~~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   70 (198)
                      +|++++|||||+++|+...-.  .                +.....+.......+.+.+  +.+.+|||||+..+...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            599999999999999642110  0                0112333344445555655  7899999999988777778


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ..+..+|++++|+|+++.........| ..+.   ..+.|+++|+||+|+..
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~---~~~~p~iiv~NK~D~~~  126 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVW-RQAE---KYGVPRIIFVNKMDRAG  126 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHH---HcCCCEEEEEECCCCCC
Confidence            889999999999999886554333222 2232   23689999999999863

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.61  E-value=2.7e-15  Score=96.45  Aligned_cols=136  Identities=26%  Similarity=0.294  Sum_probs=96.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----cccccccccccCccEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----RFRTITSSYYRGAHGII   80 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~~~d~~i   80 (198)
                      ||+++|..|+|||||.+.|.+...  .+..+..++       +...    -.+|+||.-    .+..........+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAve-------~~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAVE-------FNDK----GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhcccceee-------ccCc----cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            789999999999999999987654  223333222       2211    235999943    22333455678899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|-.++++.+..     -..+....  ..|+|-|++|.|+.+..  ..+..+.+..+.|. ++|++|+.++.|+++++..
T Consensus        70 ~v~~and~~s~f-----~p~f~~~~--~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          70 YVHAANDPESRF-----PPGFLDIG--VKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeecccCccccC-----Cccccccc--ccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHH
Confidence            999999986521     11111111  35799999999998633  45777888888887 7999999999999999998


Q ss_pred             HHH
Q 043946          160 MTA  162 (198)
Q Consensus       160 l~~  162 (198)
                      |..
T Consensus       141 L~~  143 (148)
T COG4917         141 LAS  143 (148)
T ss_pred             HHh
Confidence            864

>PRK09866 hypothetical protein; Provisional

Probab=99.61  E-value=5.8e-14  Score=113.80  Aligned_cols=108  Identities=17%  Similarity=0.181  Sum_probs=71.6

Q ss_pred             EEEEEeCCCcccc-----cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC
Q 043946           53 KLQIWDTAGQERF-----RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS  127 (198)
Q Consensus        53 ~~~i~D~~g~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~  127 (198)
                      ++.++||||....     .......+..+|+++||+|+.+..+... ....+.+... +.+.|+++|+||+|+.+...-.
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCCcccch
Confidence            4789999996431     2223347899999999999987433222 2233334332 1125999999999986433323


Q ss_pred             HHHHHHHHHH----hC---CcEEEEeccCCCCHHHHHHHHHH
Q 043946          128 YETAKAFADE----IG---IPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       128 ~~~~~~~~~~----~~---~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      .+.+..+...    .+   ..++++||++|.|++++++.|.+
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            4555554332    22   36899999999999999999876

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.58  E-value=7.6e-14  Score=119.92  Aligned_cols=145  Identities=17%  Similarity=0.186  Sum_probs=100.3

Q ss_pred             CcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeE----------------EEEEEEeCCCcccccccccccccCcc
Q 043946           14 VGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT----------------VKLQIWDTAGQERFRTITSSYYRGAH   77 (198)
Q Consensus        14 ~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~i~D~~g~~~~~~~~~~~~~~~d   77 (198)
                      ++||||+.++.+......-...++.+.....+..+...                -.+.+|||||++.+..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            45999999999888777666667766666666554211                12899999999999888888888999


Q ss_pred             EEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC----------------HHHHH----HH
Q 043946           78 GIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS----------------YETAK----AF  134 (198)
Q Consensus        78 ~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~----------------~~~~~----~~  134 (198)
                      ++++|+|+++   ++++..+.    .+..   .+.|+++++||+|+.......                .+++.    .+
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v  624 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYEL  624 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            9999999987   34433332    2222   368999999999985321110                01110    00


Q ss_pred             ---HHHh---------------CCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          135 ---ADEI---------------GIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       135 ---~~~~---------------~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                         ....               .++++++||++|.|+++++.+|.....
T Consensus       625 ~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        625 IGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence               1111               257899999999999999998865443

>PRK00007 elongation factor G; Reviewed

Probab=99.58  E-value=4.7e-14  Score=118.63  Aligned_cols=141  Identities=18%  Similarity=0.178  Sum_probs=91.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCC----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLD----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ...+|+|+|.+++|||||+++|+.  +....                +.....+.+.....+.+.+  .++.++||||+.
T Consensus         9 ~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG~~   86 (693)
T PRK00007          9 RYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPGHV   86 (693)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCCcH
Confidence            345999999999999999999973  11100                0123344445555666665  789999999988


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC---
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI---  140 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~---  140 (198)
                      .+.......+..+|++|+|+|+...-...... .+..+..   .++|+++++||+|+....  ......++...++.   
T Consensus        87 ~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~---~~~p~iv~vNK~D~~~~~--~~~~~~~i~~~l~~~~~  160 (693)
T PRK00007         87 DFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADK---YKVPRIAFVNKMDRTGAD--FYRVVEQIKDRLGANPV  160 (693)
T ss_pred             HHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHH---cCCCEEEEEECCCCCCCC--HHHHHHHHHHHhCCCee
Confidence            77666777788999999999988653332222 2222322   368999999999987543  22333344344443   


Q ss_pred             -cEEEEeccCC
Q 043946          141 -PFMETSAKDS  150 (198)
Q Consensus       141 -~~~~~S~~~~  150 (198)
                       ..+++|+.++
T Consensus       161 ~~~ipisa~~~  171 (693)
T PRK00007        161 PIQLPIGAEDD  171 (693)
T ss_pred             eEEecCccCCc
Confidence             2345555444

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.56  E-value=9e-14  Score=107.94  Aligned_cols=158  Identities=14%  Similarity=0.230  Sum_probs=105.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC--CCCCCC------------cccceeeeEEEEEEECCeEEEEEEEeCCCccccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD--SYLDSY------------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~--~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   70 (198)
                      +|+|+.+...|||||+..|+..  .+.+..            ..--+.++-.+.-.+....++++|+||||+.+|.....
T Consensus         7 NIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEVE   86 (603)
T COG1217           7 NIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVE   86 (603)
T ss_pred             eeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchhh
Confidence            7999999999999999999742  222111            01113333333333333348999999999999999999


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC-HHHHHHHHH-------HhCCcE
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS-YETAKAFAD-------EIGIPF  142 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~-~~~~~~~~~-------~~~~~~  142 (198)
                      +.+..+|++++++|+...-.    .+..-.+.+....+.+.|+|+||+|.+..+.-. .+++..+.-       +++.++
T Consensus        87 Rvl~MVDgvlLlVDA~EGpM----PQTrFVlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPi  162 (603)
T COG1217          87 RVLSMVDGVLLLVDASEGPM----PQTRFVLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPI  162 (603)
T ss_pred             hhhhhcceEEEEEEcccCCC----CchhhhHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcE
Confidence            99999999999999987432    233333444444578889999999998765211 123333333       334688


Q ss_pred             EEEeccCCC----------CHHHHHHHHHHHHHH
Q 043946          143 METSAKDSL----------NVEQAFMAMTADIKN  166 (198)
Q Consensus       143 ~~~S~~~~~----------~i~~~~~~l~~~~~~  166 (198)
                      +..|++.|.          ++.-+|+.|++.+..
T Consensus       163 vYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         163 VYASARNGTASLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             EEeeccCceeccCccccccchhHHHHHHHHhCCC
Confidence            888988764          466666666665543

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.54  E-value=7.9e-14  Score=101.40  Aligned_cols=161  Identities=17%  Similarity=0.216  Sum_probs=96.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCc--ccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-------cc----c
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYI--STIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-------IT----S   70 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~----~   70 (198)
                      ++|+++|.+|+||||++|.+++........  ...+.........+++  ..+.++||||..+...       ..    .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            689999999999999999999876644432  2223344445556777  6789999999432211       01    1


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCCCCcCC-------HHHHHHHHHHhCCc
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE--NVNKLLVGNKCDLTDKKVVS-------YETAKAFADEIGIP  141 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~iiv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~  141 (198)
                      ......|+++||+.+..- +- .-...+..+....+.  -..++||++..|......+.       ...+..+.++.+-.
T Consensus        79 ~~~~g~ha~llVi~~~r~-t~-~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGRF-TE-EDREVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             HTTT-ESEEEEEEETTB--SH-HHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             hccCCCeEEEEEEecCcc-hH-HHHHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCE
Confidence            234678999999998832 21 112222233333332  24688888888865543311       12355667777778


Q ss_pred             EEEEecc------CCCCHHHHHHHHHHHHHHhh
Q 043946          142 FMETSAK------DSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       142 ~~~~S~~------~~~~i~~~~~~l~~~~~~~~  168 (198)
                      |...+.+      ...++.++|+.+-+.+.+..
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            8877766      34568888888877776643

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.53  E-value=4.1e-14  Score=119.42  Aligned_cols=117  Identities=19%  Similarity=0.174  Sum_probs=78.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC---------------CCC-C--CcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS---------------YLD-S--YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~---------------~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      +.-+|+++|+.++|||||+++|+...               +.+ +  +..+.........+.+++..+.+.+|||||+.
T Consensus        18 ~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~   97 (720)
T TIGR00490        18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHV   97 (720)
T ss_pred             cccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCcc
Confidence            35699999999999999999997421               100 0  11122222222233355666899999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      .+.......+..+|++|+|+|+.+.-.......|. .+   ...+.|+++++||+|...
T Consensus        98 ~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~-~~---~~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        98 DFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLR-QA---LKENVKPVLFINKVDRLI  152 (720)
T ss_pred             ccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHH-HH---HHcCCCEEEEEEChhccc
Confidence            88777788899999999999998743222212222 12   123578899999999853

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PTZ00258 GTP-binding protein; Provisional

Probab=99.53  E-value=2.6e-13  Score=105.84  Aligned_cols=85  Identities=21%  Similarity=0.205  Sum_probs=58.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccc--
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQER--   64 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~--   64 (198)
                      ..++|+++|.||||||||+|+|.+........|..+.+.....+.++..               +.++.++|+||...  
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga   99 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGA   99 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCC
Confidence            4689999999999999999999876654444455554444444444321               23589999999432  


Q ss_pred             -----ccccccccccCccEEEEEEECC
Q 043946           65 -----FRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        65 -----~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                           ........++++|++++|+|+.
T Consensus       100 ~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        100 SEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             cchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                 1112233467899999999973

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.52  E-value=5e-13  Score=99.07  Aligned_cols=118  Identities=18%  Similarity=0.224  Sum_probs=70.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC-cccceeeeEEEEEEECCeEEEEEEEeCCCccccc--c-c-------cc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY-ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR--T-I-------TS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--~-~-------~~   70 (198)
                      ..++|+|+|.+|||||||+|+|++....... ....+..........++  ..+.+|||||.....  . .       ..
T Consensus        30 ~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~~I~  107 (249)
T cd01853          30 FSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKILSSIK  107 (249)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHHHHHH
Confidence            5689999999999999999999986543221 11222222223333444  678999999965431  0 0       12


Q ss_pred             ccc--cCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCC
Q 043946           71 SYY--RGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASE--NVNKLLVGNKCDLTD  122 (198)
Q Consensus        71 ~~~--~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~--~~p~iiv~nK~D~~~  122 (198)
                      .++  ...|+++||..++... ... -...+..+....+.  -.++++|+||+|...
T Consensus       108 ~~l~~~~idvIL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         108 RYLKKKTPDVVLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             HHHhccCCCEEEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence            233  2578888887665421 111 12233333332221  157999999999854

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.51  E-value=8.8e-14  Score=103.12  Aligned_cols=95  Identities=25%  Similarity=0.356  Sum_probs=76.2

Q ss_pred             ccccccccccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP  141 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~  141 (198)
                      +++..+...++.++|++++|+|+.++. ++..+..|+..+..   .++|+++|+||+|+.+......+.+..+ ...+.+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH-HHCCCe
Confidence            456677788999999999999999887 78889999876643   4789999999999965443333344433 457889


Q ss_pred             EEEEeccCCCCHHHHHHHHH
Q 043946          142 FMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus       142 ~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ++++||++|.|++++|+.|.
T Consensus       100 v~~~SAktg~gi~eLf~~l~  119 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQ  119 (245)
T ss_pred             EEEEecCCchhHHHHHhhhc
Confidence            99999999999999999875

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.51  E-value=7.7e-14  Score=113.39  Aligned_cols=162  Identities=18%  Similarity=0.179  Sum_probs=110.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC----------------eEEEEEEEeCCCccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG----------------KTVKLQIWDTAGQERFRTI   68 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~i~D~~g~~~~~~~   68 (198)
                      =++|+|+...|||-|+..+.+.........+++..+....+...+                ..-.+.++||||++.|..+
T Consensus       477 IcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtnl  556 (1064)
T KOG1144|consen  477 ICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTNL  556 (1064)
T ss_pred             eEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhhh
Confidence            479999999999999999987666555555554444433333221                0013788999999999999


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc-------------CCHHHHHHH-
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV-------------VSYETAKAF-  134 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~-------------~~~~~~~~~-  134 (198)
                      +.+....||.+|+|+|+...-.    .+.+..+...+..+.|+||.+||+|..-...             ....-+.+| 
T Consensus       557 RsrgsslC~~aIlvvdImhGle----pqtiESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~~EF~  632 (1064)
T KOG1144|consen  557 RSRGSSLCDLAILVVDIMHGLE----PQTIESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQNEFK  632 (1064)
T ss_pred             hhccccccceEEEEeehhccCC----cchhHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHHHHHH
Confidence            9999999999999999986422    2233333333445799999999999742110             000001111 


Q ss_pred             ---------HHHhC---------------CcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          135 ---------ADEIG---------------IPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       135 ---------~~~~~---------------~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                               +...|               +.++++||.+|.||-+++-+|++.....+.+
T Consensus       633 ~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~  692 (1064)
T KOG1144|consen  633 ERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVE  692 (1064)
T ss_pred             HHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHH
Confidence                     11111               3578999999999999999999887665554

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.50  E-value=7.9e-13  Score=99.64  Aligned_cols=119  Identities=17%  Similarity=0.168  Sum_probs=68.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC-CcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-------ccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS-YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-------TSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~~~   73 (198)
                      ..++|+++|.+|+||||++|+|++...... ...+.+...........+  .++.++||||..+....       ...++
T Consensus        37 ~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik~~l  114 (313)
T TIGR00991        37 SSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNIIKRFL  114 (313)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHHHHHh
Confidence            468999999999999999999998654211 111111122222233444  68999999996543111       11111


Q ss_pred             --cCccEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCC
Q 043946           74 --RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTD  122 (198)
Q Consensus        74 --~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~  122 (198)
                        ...|+++||..++.......-...+..+....+  .-.++++++|+.|...
T Consensus       115 ~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~  167 (313)
T TIGR00991       115 LGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSP  167 (313)
T ss_pred             hcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCC
Confidence              258999999665431110111223333333322  1257899999999753

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.50  E-value=9.5e-13  Score=104.71  Aligned_cols=161  Identities=21%  Similarity=0.315  Sum_probs=121.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+++.|+|+.++|||.|++.++++.+......+....+....+...+....+.+-|.+-. ....+...- ..+|+++++
T Consensus       425 Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~  502 (625)
T KOG1707|consen  425 VFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLV  502 (625)
T ss_pred             eeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEe
Confidence            578999999999999999999998888766677777777777777787778888888754 222222112 679999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc-EEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||.+++.++......++.-...  ...|+++|+.|+|+.+..+...-+..+++.+++++ -+.+|...... .++|..|.
T Consensus       503 YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~  579 (625)
T KOG1707|consen  503 YDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLA  579 (625)
T ss_pred             cccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHH
Confidence            9999999998887766655443  46899999999999765543433448899999983 45666664323 89999988


Q ss_pred             HHHHHhh
Q 043946          162 ADIKNRM  168 (198)
Q Consensus       162 ~~~~~~~  168 (198)
                      ....-..
T Consensus       580 ~~A~~Ph  586 (625)
T KOG1707|consen  580 TMAQYPH  586 (625)
T ss_pred             HhhhCCC
Confidence            8776433

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.50  E-value=3e-13  Score=101.82  Aligned_cols=149  Identities=24%  Similarity=0.253  Sum_probs=101.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC-------------C--------------------CCCcccceeeeEEEEEEEC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY-------------L--------------------DSYISTIGVDFKIRTVEQD   48 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~-------------~--------------------~~~~~~~~~~~~~~~~~~~   48 (198)
                      ..+|.+-+|+..=||||||-||+..+.             +                    .+...+++++...+.|..+
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~   84 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTE   84 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccc
Confidence            368999999999999999999964321             0                    0111223444444444333


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH
Q 043946           49 GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY  128 (198)
Q Consensus        49 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~  128 (198)
                        +.++.+-||||++.|......-...+|++|+++|+-.  .+..-...+..+....+- .++++.+||+|+.+..+-..
T Consensus        85 --KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~--Gvl~QTrRHs~I~sLLGI-rhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          85 --KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARK--GVLEQTRRHSFIASLLGI-RHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             --cceEEEecCCcHHHHhhhhhcccccccEEEEEEecch--hhHHHhHHHHHHHHHhCC-cEEEEEEeeecccccCHHHH
Confidence              3678899999999998777777788999999999943  222223333334444332 57888899999987654444


Q ss_pred             HHH----HHHHHHhCC---cEEEEeccCCCCHHH
Q 043946          129 ETA----KAFADEIGI---PFMETSAKDSLNVEQ  155 (198)
Q Consensus       129 ~~~----~~~~~~~~~---~~~~~S~~~~~~i~~  155 (198)
                      +++    ..++..+++   .++++||+.|+|+..
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCcccc
Confidence            433    345666664   689999999999763

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.50  E-value=1.3e-13  Score=107.91  Aligned_cols=163  Identities=16%  Similarity=0.103  Sum_probs=107.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccc---------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTIT---------SSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~---------~~~~   73 (198)
                      +-..+|+|.|+||||||+|.+........+.++++.....-.  ++-....+++.||||.-+.....         ....
T Consensus       168 trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH--~dykYlrwQViDTPGILD~plEdrN~IEmqsITALA  245 (620)
T KOG1490|consen  168 TRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGH--LDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALA  245 (620)
T ss_pred             cCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhh--hhhheeeeeecCCccccCcchhhhhHHHHHHHHHHH
Confidence            346799999999999999988866554444444333333233  33334678999999954321111         1122


Q ss_pred             cCccEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHH---HHHHHHHhCCcEEEEecc
Q 043946           74 RGAHGIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYET---AKAFADEIGIPFMETSAK  148 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~---~~~~~~~~~~~~~~~S~~  148 (198)
                      +--.+|+|+.|++..  .|...-..++..+..... +.|+|+|+||+|......++.+.   +..+...-+++++++|..
T Consensus       246 HLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-NK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~  324 (620)
T KOG1490|consen  246 HLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-NKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCV  324 (620)
T ss_pred             HhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhc-CCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEeccc
Confidence            334689999999863  344444445555555443 68999999999997665555433   333444445899999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhh
Q 043946          149 DSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~~~~~  168 (198)
                      +.+|+-++-...++.++..+
T Consensus       325 ~eegVm~Vrt~ACe~LLa~R  344 (620)
T KOG1490|consen  325 QEEGVMDVRTTACEALLAAR  344 (620)
T ss_pred             chhceeeHHHHHHHHHHHHH
Confidence            99999998888887776433

>TIGR00101 ureG urease accessory protein UreG

Probab=99.49  E-value=1.4e-12  Score=93.83  Aligned_cols=102  Identities=20%  Similarity=0.133  Sum_probs=63.4

Q ss_pred             EEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHH
Q 043946           53 KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAK  132 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~  132 (198)
                      ...++++.|..-..... .  .-+|.+|.|+|+.+.++...  .....+      ...-++++||+|+........+.+.
T Consensus        93 D~iiIEt~G~~l~~~~~-~--~l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~~  161 (199)
T TIGR00101        93 EMVFIESGGDNLSATFS-P--ELADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVME  161 (199)
T ss_pred             CEEEEECCCCCcccccc-h--hhhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHHH
Confidence            45566777732111111 1  12688999999987655221  111111      1223889999999743223344445


Q ss_pred             HHHHH--hCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          133 AFADE--IGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       133 ~~~~~--~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      +..+.  .+++++++|+++|.|++++|+||.+.+.
T Consensus       162 ~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       162 RDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            55544  3479999999999999999999987653

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK13768 GTPase; Provisional

Probab=99.49  E-value=4.6e-13  Score=99.80  Aligned_cols=110  Identities=18%  Similarity=0.213  Sum_probs=68.9

Q ss_pred             EEEEEeCCCcccc---cccccccc---cC--ccEEEEEEECCChhhHHHH-H-HHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           53 KLQIWDTAGQERF---RTITSSYY---RG--AHGIIIVYDVTDQESFNNV-K-QWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        53 ~~~i~D~~g~~~~---~~~~~~~~---~~--~d~~i~v~d~~~~~s~~~~-~-~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      .+.+||+||..+.   ...+..++   ..  .+++++|+|+........+ . .|+...... ..+.|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            5889999997653   22232222   22  8999999999654322221 2 222222222 23689999999999875


Q ss_pred             CCcCCHHHHHH----------------------------HHHHhC--CcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          123 KKVVSYETAKA----------------------------FADEIG--IPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       123 ~~~~~~~~~~~----------------------------~~~~~~--~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ..+.  +...+                            ..+..+  .+++++|++++.|+++++++|.+.+.
T Consensus       177 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        177 EEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             chhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence            4321  11111                            122333  47899999999999999999987663

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.46  E-value=2.9e-12  Score=99.00  Aligned_cols=84  Identities=17%  Similarity=0.155  Sum_probs=56.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeE---------------EEEEEEeCCCccc---
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT---------------VKLQIWDTAGQER---   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~---   64 (198)
                      .++|+++|.||||||||+|+|.+........|..+.+...-.+.+....               .++.+.|+||...   
T Consensus         2 ~~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~   81 (364)
T PRK09601          2 GLKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS   81 (364)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCC
Confidence            3789999999999999999999866433333444444444344443321               2589999999532   


Q ss_pred             ----ccccccccccCccEEEEEEECC
Q 043946           65 ----FRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        65 ----~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                          ........++++|++++|+|+.
T Consensus        82 ~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         82 KGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             hHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence                1112233468899999999984

>cd00066 G-alpha G protein alpha subunit

Probab=99.46  E-value=3.2e-12  Score=98.25  Aligned_cols=118  Identities=24%  Similarity=0.251  Sum_probs=81.4

Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCCh----------hhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCC
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEIDRY-ASENVNKLLVGNKCD  119 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D  119 (198)
                      .+.+.+||++|+......|..++.+++++|||+|+++-          +.+.+....+..+... .-.+.|+++++||.|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D  239 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKD  239 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChH
Confidence            37799999999999999999999999999999999873          2333333333322222 225789999999999


Q ss_pred             CCCCC----------------cCCHHHHHHHHHHh----------CCcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          120 LTDKK----------------VVSYETAKAFADEI----------GIPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       120 ~~~~~----------------~~~~~~~~~~~~~~----------~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      +..+.                ....+.+..+....          .+....++|.+..++..+|+.+.+.+.+..
T Consensus       240 ~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         240 LFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             HHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            64210                12334444333221          134567888889999999999888887643

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.46  E-value=8e-13  Score=111.90  Aligned_cols=115  Identities=21%  Similarity=0.208  Sum_probs=76.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCCC--------------CcccceeeeEEEE--EEECCeEEEEEEEeCCCccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLDS--------------YISTIGVDFKIRT--VEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~~--------------~~~~~~~~~~~~~--~~~~~~~~~~~i~D~~g~~~   64 (198)
                      .-+|+++|+.++|||||+++|+...  ....              ....++.......  +..++..+.+.++||||+.+
T Consensus        20 iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~d   99 (731)
T PRK07560         20 IRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVD   99 (731)
T ss_pred             ccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccC
Confidence            3479999999999999999997421  1100              0011122222222  23344568899999999998


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +.......+..+|++|+|+|+...-.......|. ....   .+.|.++++||+|..
T Consensus       100 f~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~-~~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        100 FGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLR-QALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             hHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHH-HHHH---cCCCeEEEEECchhh
Confidence            8777788889999999999998753322222222 2222   256889999999975

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.45  E-value=1.9e-12  Score=93.89  Aligned_cols=150  Identities=17%  Similarity=0.217  Sum_probs=83.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCC------------Cccc-c-eeeeEEEEEEEC------------------Ce
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDS------------YIST-I-GVDFKIRTVEQD------------------GK   50 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~------------~~~~-~-~~~~~~~~~~~~------------------~~   50 (198)
                      ...|.|+|+.|+|||||+++++.......            .... . ........+.-+                  ..
T Consensus        22 ~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~~  101 (207)
T TIGR00073        22 LVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPLD  101 (207)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhccC
Confidence            56899999999999999999975311000            0000 0 000000110000                  00


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHH
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYET  130 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~  130 (198)
                      ...+.++|+.|.-..   ...+....+..+.|+|+.+.+...  ......      ...|.++++||+|+.+.......+
T Consensus       102 ~~d~IiIEt~G~l~~---~~~~~~~~~~~i~Vvd~~~~d~~~--~~~~~~------~~~a~iiv~NK~Dl~~~~~~~~~~  170 (207)
T TIGR00073       102 DIDLLFIENVGNLVC---PADFDLGEHMRVVLLSVTEGDDKP--LKYPGM------FKEADLIVINKADLAEAVGFDVEK  170 (207)
T ss_pred             CCCEEEEecCCCcCC---CcccccccCeEEEEEecCcccchh--hhhHhH------HhhCCEEEEEHHHccccchhhHHH
Confidence            134566777762100   011112345556778877543211  111111      145789999999997543222334


Q ss_pred             HHHHHHHhC--CcEEEEeccCCCCHHHHHHHHHHH
Q 043946          131 AKAFADEIG--IPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       131 ~~~~~~~~~--~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      ..+..+..+  .+++++|++++.|++++|+++.+.
T Consensus       171 ~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       171 MKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            444444443  789999999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.45  E-value=1.7e-12  Score=97.62  Aligned_cols=162  Identities=18%  Similarity=0.219  Sum_probs=97.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc----CCC---CCCCcccceeeeEEEEEEE-------CCeEEEEEEEeCCCcccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD----DSY---LDSYISTIGVDFKIRTVEQ-------DGKTVKLQIWDTAGQERFRT   67 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~----~~~---~~~~~~~~~~~~~~~~~~~-------~~~~~~~~i~D~~g~~~~~~   67 (198)
                      .++++.++|...+|||||.++|..    ..+   +.+....++.+.....+..       .+..+++.++|+||+...-.
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIR   85 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIR   85 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHH
Confidence            368999999999999999999953    122   2222233333333323322       24557889999999987655


Q ss_pred             cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh---------
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI---------  138 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~---------  138 (198)
                      .......-.|..++|+|+...-.-..++.++  +-+..  -...++|+||+|...+.+ ....+++..++.         
T Consensus        86 tiiggaqiiDlm~lviDv~kG~QtQtAEcLi--ig~~~--c~klvvvinkid~lpE~q-r~ski~k~~kk~~KtLe~t~f  160 (522)
T KOG0461|consen   86 TIIGGAQIIDLMILVIDVQKGKQTQTAECLI--IGELL--CKKLVVVINKIDVLPENQ-RASKIEKSAKKVRKTLESTGF  160 (522)
T ss_pred             HHHhhhheeeeeeEEEehhcccccccchhhh--hhhhh--ccceEEEEeccccccchh-hhhHHHHHHHHHHHHHHhcCc
Confidence            4555556679999999997643222222211  11111  235577888888743321 122333332221         


Q ss_pred             --CCcEEEEeccCC----CCHHHHHHHHHHHHHHhh
Q 043946          139 --GIPFMETSAKDS----LNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       139 --~~~~~~~S~~~~----~~i~~~~~~l~~~~~~~~  168 (198)
                        +.+++++|+..|    .++.|+.+.|.+.+.+..
T Consensus       161 ~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~  196 (522)
T KOG0461|consen  161 DGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPK  196 (522)
T ss_pred             CCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCC
Confidence              268999999999    667777666666665533

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.45  E-value=3.3e-13  Score=115.58  Aligned_cols=116  Identities=16%  Similarity=0.175  Sum_probs=79.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC--CC--------------CCcccceeeeEEEEEEEC--------------CeE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY--LD--------------SYISTIGVDFKIRTVEQD--------------GKT   51 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~--~~--------------~~~~~~~~~~~~~~~~~~--------------~~~   51 (198)
                      ..-+|+|+|+.++|||||+++|+...-  ..              +.....+.......+.+.              +..
T Consensus        18 ~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (843)
T PLN00116         18 NIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNE   97 (843)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCc
Confidence            456899999999999999999974321  10              011112222222233332              235


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +.++++||||+.+|.......+..+|++|+|+|+..+-.......|..    ....++|+++++||+|..
T Consensus        98 ~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~----~~~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         98 YLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ----ALGERIRPVLTVNKMDRC  163 (843)
T ss_pred             eEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH----HHHCCCCEEEEEECCccc
Confidence            788999999999998878888899999999999987644333232322    223478999999999986

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.45  E-value=7.2e-12  Score=93.59  Aligned_cols=159  Identities=15%  Similarity=0.324  Sum_probs=116.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC--eEEEEEEEeCCCcccccccccccccCc----cE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG--KTVKLQIWDTAGQERFRTITSSYYRGA----HG   78 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~----d~   78 (198)
                      +|+|+|..++||||||.+|.+..   .+.+..+.++....+.-+.  .-.++.+|=.-|+--+..+.+..+...    .+
T Consensus        54 ~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aetl  130 (473)
T KOG3905|consen   54 NVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAETL  130 (473)
T ss_pred             eEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccceE
Confidence            68999999999999999998754   4456666666666554332  225788998888776666666655544    58


Q ss_pred             EEEEEECCChhh-HHHHHHHHHHHHHhc----------------------------------------------------
Q 043946           79 IIIVYDVTDQES-FNNVKQWLNEIDRYA----------------------------------------------------  105 (198)
Q Consensus        79 ~i~v~d~~~~~s-~~~~~~~~~~~~~~~----------------------------------------------------  105 (198)
                      +||+.|++++.. +..+..|.+.+.++.                                                    
T Consensus       131 viltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~ll  210 (473)
T KOG3905|consen  131 VILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLL  210 (473)
T ss_pred             EEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccccccc
Confidence            899999999844 566677776632110                                                    


Q ss_pred             ---------CCCCcEEEEEeCCCCCC----CCcC-------CHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          106 ---------SENVNKLLVGNKCDLTD----KKVV-------SYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       106 ---------~~~~p~iiv~nK~D~~~----~~~~-------~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                               +-++|+++|++|+|...    +-+.       ....+++||..+|+.++.+|+++..|++-+..+|.+..+
T Consensus       211 PL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~y  290 (473)
T KOG3905|consen  211 PLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSY  290 (473)
T ss_pred             ccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhc
Confidence                     11377999999999832    1111       123577888999999999999999999999999998875


Q ss_pred             H
Q 043946          166 N  166 (198)
Q Consensus       166 ~  166 (198)
                      -
T Consensus       291 G  291 (473)
T KOG3905|consen  291 G  291 (473)
T ss_pred             C
Confidence            3

>PTZ00416 elongation factor 2; Provisional

Probab=99.44  E-value=4.4e-13  Score=114.67  Aligned_cols=115  Identities=17%  Similarity=0.189  Sum_probs=77.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCC--------------CCcccceeeeEEEEEEEC--------CeEEEEEEEe
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLD--------------SYISTIGVDFKIRTVEQD--------GKTVKLQIWD   58 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~--------------~~~~~~~~~~~~~~~~~~--------~~~~~~~i~D   58 (198)
                      .-+|+|+|+.++|||||+++|+...  ...              +.....+.......+.+.        +..+.+.++|
T Consensus        19 irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liD   98 (836)
T PTZ00416         19 IRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLID   98 (836)
T ss_pred             cCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEEc
Confidence            4589999999999999999998521  110              011112222222233333        1247899999


Q ss_pred             CCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           59 TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        59 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      |||+.++.......+..+|++|+|+|+.++-...... .+..+.   ..++|+++++||+|+.
T Consensus        99 tPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~-~~~~~~---~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         99 SPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTET-VLRQAL---QERIRPVLFINKVDRA  157 (836)
T ss_pred             CCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHH-HHHHHH---HcCCCEEEEEEChhhh
Confidence            9999988777788889999999999998754333222 222232   2368999999999986

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.44  E-value=2e-12  Score=99.15  Aligned_cols=104  Identities=13%  Similarity=0.146  Sum_probs=67.7

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYE  129 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~  129 (198)
                      +.+.++||+|.....   ......+|.+++|.+...++.+..+..   .+.+     ..-++|+||+|+......  ...
T Consensus       149 ~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k~---gi~E-----~aDIiVVNKaDl~~~~~a~~~~~  217 (332)
T PRK09435        149 YDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIKK---GIME-----LADLIVINKADGDNKTAARRAAA  217 (332)
T ss_pred             CCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHHh---hhhh-----hhheEEeehhcccchhHHHHHHH
Confidence            668999999965322   224667999999987555554433322   1112     223899999998653311  112


Q ss_pred             HHHHHHHH-------hCCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          130 TAKAFADE-------IGIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       130 ~~~~~~~~-------~~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++......       +..+++.+|++++.|++++++.|.+.+..
T Consensus       218 el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~  261 (332)
T PRK09435        218 EYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAA  261 (332)
T ss_pred             HHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            23333222       22589999999999999999999987653

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.41  E-value=1.1e-11  Score=96.01  Aligned_cols=152  Identities=12%  Similarity=0.175  Sum_probs=90.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC----CCC------------CCCccc---ceeeeE-----EEEEE-ECCeEEEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD----SYL------------DSYIST---IGVDFK-----IRTVE-QDGKTVKLQIW   57 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~----~~~------------~~~~~~---~~~~~~-----~~~~~-~~~~~~~~~i~   57 (198)
                      .+-|.|+|+.++|||||||+|.+.    ...            +...++   ++++..     ..++. .++...++.++
T Consensus        17 ~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlI   96 (492)
T TIGR02836        17 DIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLV   96 (492)
T ss_pred             cEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEE
Confidence            367899999999999999999865    222            111122   111221     12222 23445689999


Q ss_pred             eCCCccccc-------cc----------------------cccccc-CccEEEEEE-ECC-----ChhhHHHHHHHHHHH
Q 043946           58 DTAGQERFR-------TI----------------------TSSYYR-GAHGIIIVY-DVT-----DQESFNNVKQWLNEI  101 (198)
Q Consensus        58 D~~g~~~~~-------~~----------------------~~~~~~-~~d~~i~v~-d~~-----~~~s~~~~~~~~~~~  101 (198)
                      ||+|...-.       ..                      ....+. .+|+.|+|. |.+     ..+....-..++..+
T Consensus        97 DcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL  176 (492)
T TIGR02836        97 DCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL  176 (492)
T ss_pred             ECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH
Confidence            999933110       00                      222344 789999988 764     112223334566666


Q ss_pred             HHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC--CCCHHHHHHH
Q 043946          102 DRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD--SLNVEQAFMA  159 (198)
Q Consensus       102 ~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~--~~~i~~~~~~  159 (198)
                      ...   ++|+++++|+.|.....  ..+...++..+++++++.+|...  ...+..+|+.
T Consensus       177 k~~---~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~  231 (492)
T TIGR02836       177 KEL---NKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEE  231 (492)
T ss_pred             Hhc---CCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHH
Confidence            554   89999999999953222  34445567778888888877654  3344444443

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>cd01882 BMS1 Bms1

Probab=99.41  E-value=3.5e-12  Score=93.58  Aligned_cols=138  Identities=18%  Similarity=0.195  Sum_probs=79.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ...|+++|.+|+|||||++.+.............+ ..   .+.. ....++.++|+||.-  .. .......+|++++|
T Consensus        39 ~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g-~i---~i~~-~~~~~i~~vDtPg~~--~~-~l~~ak~aDvVllv  110 (225)
T cd01882          39 PLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKG-PI---TVVT-GKKRRLTFIECPNDI--NA-MIDIAKVADLVLLL  110 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcccCccccccc-cE---EEEe-cCCceEEEEeCCchH--HH-HHHHHHhcCEEEEE
Confidence            35689999999999999999986421111111111 11   1111 133678899999853  11 22345789999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCCCCCCcCC---HHHHHH-HHHH--hCCcEEEEeccCCCC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTDKKVVS---YETAKA-FADE--IGIPFMETSAKDSLN  152 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-iiv~nK~D~~~~~~~~---~~~~~~-~~~~--~~~~~~~~S~~~~~~  152 (198)
                      +|+........ ...+..+..   .+.|. ++|+||+|+.+.....   .+++.+ +..+  .+.+++.+||+++-.
T Consensus       111 iDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         111 IDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             EecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            99976433221 223333322   25675 4599999986432111   112222 2211  235899999998744

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.41  E-value=3.8e-13  Score=95.74  Aligned_cols=146  Identities=23%  Similarity=0.317  Sum_probs=92.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc-CCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-----cccccccccCc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD-DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-----RTITSSYYRGA   76 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~~~~~~~~~   76 (198)
                      .=||+++|.+|+||||+--.+.. ........++.+.+.....+.+-|. ..+.+||++|++.+     .......+.+.
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGn-l~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGN-LVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhh-heeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            34899999999999997433321 1111233344444555444444443 67899999999854     23456788999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHH---HHHHhcCCCCcEEEEEeCCCCCCCCc--C----CHHHHHHHHHHhCCcEEEEec
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLN---EIDRYASENVNKLLVGNKCDLTDKKV--V----SYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~---~~~~~~~~~~p~iiv~nK~D~~~~~~--~----~~~~~~~~~~~~~~~~~~~S~  147 (198)
                      +++|+|+|++..+--..+..+..   .+..+ .+...+.++++|+|+.....  .    ..+.+..+....++.++++|.
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsi  161 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSI  161 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccch
Confidence            99999999998765444544444   33333 34578888999999975432  1    122333444444567777777


Q ss_pred             cCC
Q 043946          148 KDS  150 (198)
Q Consensus       148 ~~~  150 (198)
                      .+.
T Consensus       162 wDe  164 (295)
T KOG3886|consen  162 WDE  164 (295)
T ss_pred             hhH
Confidence            653

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.40  E-value=2.4e-13  Score=100.17  Aligned_cols=112  Identities=21%  Similarity=0.212  Sum_probs=58.0

Q ss_pred             EEEEEeCCCcccccccccccc--------cCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           53 KLQIWDTAGQERFRTITSSYY--------RGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      .+.++||||+.++...+....        ...-++++++|+....+ ...+..++-.+..+..-+.|.+.|+||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            578999999887644433322        34568899999864322 222333333332222237999999999999752


Q ss_pred             C--c-----CC------------HHHHHHHHHHh---C-C-cEEEEeccCCCCHHHHHHHHHHHH
Q 043946          124 K--V-----VS------------YETAKAFADEI---G-I-PFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       124 ~--~-----~~------------~~~~~~~~~~~---~-~-~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      .  .     ..            .....+++...   + + .++++|+.+++++++++..+-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            1  0     00            01111122222   2 3 799999999999999999876654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.40  E-value=6.6e-12  Score=83.40  Aligned_cols=114  Identities=30%  Similarity=0.352  Sum_probs=80.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCc-ccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYI-STIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      +||+++|..|+|||+|+.++....+...+. ++.+                           +......+.+.++.++++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            589999999999999999997766643332 2222                           222344466778999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      ++..+.+++..+  |...+......+.|.++++||.|+.+......++.        ..++++|++++.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~--------~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEG--------LEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHH--------HHHHHHhCCCcchhh
Confidence            999999888655  77666555556788999999999854333333222        245567888888774

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.39  E-value=4.1e-12  Score=98.19  Aligned_cols=132  Identities=17%  Similarity=0.224  Sum_probs=93.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHh--cCCCC----------C----------CCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            5 KLLLIGDSGVGKSCLLLRFA--DDSYL----------D----------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~--~~~~~----------~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      ..+|+-.|.+|||||-..|+  ++.+.          .          +...++.++.++..+...+  ..+++.||||+
T Consensus        14 TFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~--~~iNLLDTPGH   91 (528)
T COG4108          14 TFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYAD--CLVNLLDTPGH   91 (528)
T ss_pred             ceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCC--eEEeccCCCCc
Confidence            46899999999999999985  12110          0          1112345555566666555  78999999999


Q ss_pred             ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcE
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPF  142 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  142 (198)
                      ++|..-..+.+..+|.++.|+|+...-.    .+.+..+.-....++|++-++||+|.....  +.+.+.++.+.+++..
T Consensus        92 eDFSEDTYRtLtAvDsAvMVIDaAKGiE----~qT~KLfeVcrlR~iPI~TFiNKlDR~~rd--P~ELLdEiE~~L~i~~  165 (528)
T COG4108          92 EDFSEDTYRTLTAVDSAVMVIDAAKGIE----PQTLKLFEVCRLRDIPIFTFINKLDREGRD--PLELLDEIEEELGIQC  165 (528)
T ss_pred             cccchhHHHHHHhhheeeEEEecccCcc----HHHHHHHHHHhhcCCceEEEeeccccccCC--hHHHHHHHHHHhCcce
Confidence            9999999999999999999999986432    222222222233589999999999986443  5677888888777544


Q ss_pred             EE
Q 043946          143 ME  144 (198)
Q Consensus       143 ~~  144 (198)
                      ++
T Consensus       166 ~P  167 (528)
T COG4108         166 AP  167 (528)
T ss_pred             ec
Confidence            43

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.37  E-value=6.4e-12  Score=87.68  Aligned_cols=80  Identities=25%  Similarity=0.228  Sum_probs=56.5

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccCCCCHH
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKDSLNVE  154 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~~~~i~  154 (198)
                      +.-|+|+|....+..-  ..-...+      -..-++|+||.|+......+.+...+.+++.+  .+++++|.++|.|++
T Consensus       119 ~~~v~VidvteGe~~P--~K~gP~i------~~aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~  190 (202)
T COG0378         119 HLRVVVIDVTEGEDIP--RKGGPGI------FKADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLD  190 (202)
T ss_pred             ceEEEEEECCCCCCCc--ccCCCce------eEeeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHH
Confidence            3888889988654210  0000000      01348899999998776667777777777665  799999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          155 QAFMAMTADI  164 (198)
Q Consensus       155 ~~~~~l~~~~  164 (198)
                      ++++|+....
T Consensus       191 ~~~~~i~~~~  200 (202)
T COG0378         191 EWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHhhc
Confidence            9999987654

>cd01900 YchF YchF subfamily

Probab=99.36  E-value=1.3e-11  Score=92.50  Aligned_cols=81  Identities=17%  Similarity=0.166  Sum_probs=54.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccc------
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQER------   64 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~------   64 (198)
                      |+++|.||||||||+|+|.+........+..+.+.....+.+.+.               ...+.++|+||...      
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            579999999999999999987664444455554444444444432               12589999999432      


Q ss_pred             -ccccccccccCccEEEEEEECC
Q 043946           65 -FRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        65 -~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                       ........++++|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1112223457899999999873

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=1.3e-11  Score=98.38  Aligned_cols=150  Identities=21%  Similarity=0.266  Sum_probs=99.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC-------------------------------CCCCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD-------------------------------SYLDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .+..+|+|...+|||||..+|+..                               .-.+++..+.+.+.....|+  ...
T Consensus       177 ~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fe--s~~  254 (603)
T KOG0458|consen  177 HLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFE--SKS  254 (603)
T ss_pred             ceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEe--cCc
Confidence            477899999999999999998532                               11123334444444444444  444


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hHH---HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SFN---NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..++|.|+||+..|......-..++|+.|+|+|++..+   .|+   ...+....++.+ + -..++|++||+|+.+=.+
T Consensus       255 ~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L-g-i~qlivaiNKmD~V~Wsq  332 (603)
T KOG0458|consen  255 KIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL-G-ISQLIVAINKMDLVSWSQ  332 (603)
T ss_pred             eeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc-C-cceEEEEeecccccCccH
Confidence            78999999999999888888889999999999998532   122   122333333333 2 246788899999986433


Q ss_pred             CCHHHHH----HHH-HHhC-----CcEEEEeccCCCCHHHH
Q 043946          126 VSYETAK----AFA-DEIG-----IPFMETSAKDSLNVEQA  156 (198)
Q Consensus       126 ~~~~~~~----~~~-~~~~-----~~~~~~S~~~~~~i~~~  156 (198)
                      -..+++.    .+. +..|     +.++++|+.+|.|+-..
T Consensus       333 ~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  333 DRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             HHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            3333333    333 3333     47999999999986543

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.36  E-value=5.5e-12  Score=97.51  Aligned_cols=162  Identities=15%  Similarity=0.167  Sum_probs=82.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC-CCCCCCccc--ceeeeEEEEEEECCeEEEEEEEeCCCccccccc-----ccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD-SYLDSYIST--IGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-----TSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----~~~~~   73 (198)
                      .+++|+|+|.+|+|||||||+|.+- .-.+...++  ..++.....+..+.. -.+.+||.||.....-.     ...-+
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~-pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKF-PNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCC-CCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            3689999999999999999999652 111112221  122233333333321 25999999996432111     12235


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC-------CCCcCC----HHHHHHHHHH----h
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT-------DKKVVS----YETAKAFADE----I  138 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~-------~~~~~~----~~~~~~~~~~----~  138 (198)
                      ...|.+|++.+-.=.+.  + ......+..+   ++|+++|-+|+|..       .++...    .+++++.+..    .
T Consensus       113 ~~yD~fiii~s~rf~~n--d-v~La~~i~~~---gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~  186 (376)
T PF05049_consen  113 YRYDFFIIISSERFTEN--D-VQLAKEIQRM---GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKA  186 (376)
T ss_dssp             GG-SEEEEEESSS--HH--H-HHHHHHHHHT---T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCT
T ss_pred             cccCEEEEEeCCCCchh--h-HHHHHHHHHc---CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHc
Confidence            67798887765322211  1 2222334333   78999999999962       111222    2333433332    2


Q ss_pred             CC---cEEEEeccCC--CCHHHHHHHHHHHHHHhhhc
Q 043946          139 GI---PFMETSAKDS--LNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       139 ~~---~~~~~S~~~~--~~i~~~~~~l~~~~~~~~~~  170 (198)
                      ++   ++|.+|..+-  .++..+.+.|.+.+..++..
T Consensus       187 gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~  223 (376)
T PF05049_consen  187 GVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRH  223 (376)
T ss_dssp             T-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHH
T ss_pred             CCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHH
Confidence            33   5899999774  56889999998888765543

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.34  E-value=1.9e-11  Score=85.71  Aligned_cols=62  Identities=24%  Similarity=0.303  Sum_probs=43.2

Q ss_pred             EEEEeCCCccc----ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 043946           54 LQIWDTAGQER----FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKC  118 (198)
Q Consensus        54 ~~i~D~~g~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~  118 (198)
                      +.|+|+||...    ...++..++..+|++|+|.++.+...-.....+.......   ...+++|.||+
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            78999999643    2356777889999999999999865544444444444332   34588999984

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.34  E-value=2.1e-11  Score=91.99  Aligned_cols=141  Identities=18%  Similarity=0.261  Sum_probs=77.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC----------cccceeeeEEEEEEECCeEEEEEEEeCCCcccc------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY----------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF------   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------   65 (198)
                      ..++|+|+|.+|+|||||||.|.+.......          ..+.........+.-++..+.+.++||||....      
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            3689999999999999999999875443321          122233444445566788899999999993211      


Q ss_pred             --------------------ccc-ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           66 --------------------RTI-TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        66 --------------------~~~-~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                                          ... ....=.++|+++|.++++... +.  ...+..+.+. ...+++|-|+.|+|.....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~-L~--~~Di~~mk~L-s~~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHG-LK--PLDIEFMKRL-SKRVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSS-S---HHHHHHHHHH-TTTSEEEEEESTGGGS-HH
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCcc-ch--HHHHHHHHHh-cccccEEeEEecccccCHH
Confidence                                000 011124579999999986532 11  1122223333 3358899999999985432


Q ss_pred             cC--CHHHHHHHHHHhCCcEEEEe
Q 043946          125 VV--SYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       125 ~~--~~~~~~~~~~~~~~~~~~~S  146 (198)
                      +.  -.+.+......+++.++...
T Consensus       159 el~~~k~~i~~~l~~~~I~~f~f~  182 (281)
T PF00735_consen  159 ELQAFKQRIREDLEENNIKIFDFP  182 (281)
T ss_dssp             HHHHHHHHHHHHHHHTT--S----
T ss_pred             HHHHHHHHHHHHHHHcCceeeccc
Confidence            22  13345555666777666533

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.32  E-value=2.1e-11  Score=101.48  Aligned_cols=117  Identities=18%  Similarity=0.185  Sum_probs=86.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCC----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLD----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ..-+|.|+|+.++|||||..+++..  ....                +....++.+....++.+.+ ++.++++||||+-
T Consensus         9 ~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPGHV   87 (697)
T COG0480           9 RIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPGHV   87 (697)
T ss_pred             cceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCCcc
Confidence            4568999999999999999998632  1110                1112345555555666664 4889999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      +|.....+.++.+|++++|+|+...-..+.-.-|....    ..++|.++++||+|....
T Consensus        88 DFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~----~~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          88 DFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD----KYGVPRILFVNKMDRLGA  143 (697)
T ss_pred             ccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh----hcCCCeEEEEECcccccc
Confidence            99999999999999999999998865433333344333    347999999999998654

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.32  E-value=7.1e-11  Score=94.48  Aligned_cols=159  Identities=17%  Similarity=0.366  Sum_probs=111.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC--eEEEEEEEeCCCcccccccccccccCc----cE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG--KTVKLQIWDTAGQERFRTITSSYYRGA----HG   78 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~----d~   78 (198)
                      .|+|+|..++|||||+.+|.+..   ...++.+.++....+.-+.  ...++.+|-+.|...+..+....+...    -+
T Consensus        27 ~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~  103 (472)
T PF05783_consen   27 SVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTL  103 (472)
T ss_pred             eEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceE
Confidence            68999999999999999987643   3445556666555443222  224689999988766766665555432    47


Q ss_pred             EEEEEECCChhhH-HHHHHHHHHHH-------------------------Hh------c---------------------
Q 043946           79 IIIVYDVTDQESF-NNVKQWLNEID-------------------------RY------A---------------------  105 (198)
Q Consensus        79 ~i~v~d~~~~~s~-~~~~~~~~~~~-------------------------~~------~---------------------  105 (198)
                      +|+|+|.+.|..+ ..+..|+..++                         .+      .                     
T Consensus       104 vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~  183 (472)
T PF05783_consen  104 VVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVL  183 (472)
T ss_pred             EEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccccccc
Confidence            8889999998654 35555554420                         00      0                     


Q ss_pred             ----------CCCCcEEEEEeCCCCCC----CCc-------CCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          106 ----------SENVNKLLVGNKCDLTD----KKV-------VSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       106 ----------~~~~p~iiv~nK~D~~~----~~~-------~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                                +-++|++||++|+|...    ...       ...+-++.+|..+|+.++.+|++...+++-++.+|.+.+
T Consensus       184 lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l  263 (472)
T PF05783_consen  184 LPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRL  263 (472)
T ss_pred             CCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHh
Confidence                      00379999999999742    111       122347778889999999999999999999999988887


Q ss_pred             HH
Q 043946          165 KN  166 (198)
Q Consensus       165 ~~  166 (198)
                      ..
T Consensus       264 ~~  265 (472)
T PF05783_consen  264 YG  265 (472)
T ss_pred             cc
Confidence            65

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.31  E-value=7.2e-12  Score=93.42  Aligned_cols=162  Identities=17%  Similarity=0.229  Sum_probs=101.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC---CCCCCCcccceeeeEEEE--E------------E----EC------CeEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGVDFKIRT--V------------E----QD------GKTVKLQ   55 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~~~~--~------------~----~~------~~~~~~~   55 (198)
                      .++|..+|....|||||.++|.+-   +.+++....++.......  +            .    .+      .-...+.
T Consensus        10 ~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~VS   89 (415)
T COG5257          10 EVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVS   89 (415)
T ss_pred             ceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEEE
Confidence            478999999999999999999642   222222222111110000  0            0    00      1123578


Q ss_pred             EEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHHHH
Q 043946           56 IWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETAKA  133 (198)
Q Consensus        56 i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~  133 (198)
                      |.|.||++-...-..+-..-.|++++|+.++.+-.--...+.+-.+.-+.  -..++++-||+|+...+.  ..++++++
T Consensus        90 fVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIig--ik~iiIvQNKIDlV~~E~AlE~y~qIk~  167 (415)
T COG5257          90 FVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIG--IKNIIIVQNKIDLVSRERALENYEQIKE  167 (415)
T ss_pred             EeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhc--cceEEEEecccceecHHHHHHHHHHHHH
Confidence            99999998654333333344799999999987433222233333333332  257888999999976432  23455666


Q ss_pred             HHHHh---CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          134 FADEI---GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       134 ~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      |.+-.   +++++++||..+.||+-+++.|.+.+..
T Consensus       168 FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         168 FVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            65533   4699999999999999999998887754

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.31  E-value=2.1e-11  Score=89.19  Aligned_cols=116  Identities=16%  Similarity=0.171  Sum_probs=67.3

Q ss_pred             EEEEEEeCCCcccc------cccccccc--cCccEEEEEEECCCh---hhHH-HHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERF------RTITSSYY--RGAHGIIIVYDVTDQ---ESFN-NVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~------~~~~~~~~--~~~d~~i~v~d~~~~---~s~~-~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++||||+-+.      ..+....+  .---++++|+|...-   ..|- ++...-..+   ...+.|+|++.||.|
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSil---yktklp~ivvfNK~D  192 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSIL---YKTKLPFIVVFNKTD  192 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHH---HhccCCeEEEEeccc
Confidence            56889999996432      11221222  223577788886542   2221 222222222   224799999999999


Q ss_pred             CCCCCcC-----CHHHHHHHH--------------------HH-hCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          120 LTDKKVV-----SYETAKAFA--------------------DE-IGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       120 ~~~~~~~-----~~~~~~~~~--------------------~~-~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +.+....     ..+..++..                    .. .++..+-+|+.+|.|++++|..+-+.+.++...
T Consensus       193 v~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy~~~  269 (366)
T KOG1532|consen  193 VSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEYEEE  269 (366)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHHHHH
Confidence            9753211     000000000                    01 136789999999999999999998877665443

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.31  E-value=2.7e-10  Score=82.46  Aligned_cols=153  Identities=22%  Similarity=0.244  Sum_probs=102.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-------cccccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-------RFRTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~~~   76 (198)
                      -||+++|.|++|||||+..+...+-........+.+...-.+..++  -.+++.|.||.-       ..........+.+
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQviavArta  140 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIAVARTA  140 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecC--ceEEEecCcccccccccCCCCCceEEEEeecc
Confidence            4799999999999999999886433222223334455555666666  578899999942       2234455667889


Q ss_pred             cEEEEEEECCChhhHH-HHHHHHHHH-----------------------------------------HHh----------
Q 043946           77 HGIIIVYDVTDQESFN-NVKQWLNEI-----------------------------------------DRY----------  104 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~-~~~~~~~~~-----------------------------------------~~~----------  104 (198)
                      |.++.|.|++..+.-. -++..++.+                                         .++          
T Consensus       141 DlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl~R  220 (364)
T KOG1486|consen  141 DLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVLFR  220 (364)
T ss_pred             cEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEEEe
Confidence            9999999998644321 122222221                                         000          


Q ss_pred             --------------cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          105 --------------ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       105 --------------~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                                    ...-++++.|-||+|.     ++.+++.++++.-+.  +-+|.....|++.+++.|++.+.
T Consensus       221 eD~t~DdfIDvi~gnr~Y~~ClYvYnKID~-----vs~eevdrlAr~Pns--vViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  221 EDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ-----VSIEEVDRLARQPNS--VVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             cCCChHHHHHHHhccceEEEEEEEeeccce-----ecHHHHHHHhcCCCc--EEEEeccccCHHHHHHHHHHHhc
Confidence                          0011456788888884     578888888877665  44577888899999999998875

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.30  E-value=3.5e-11  Score=91.98  Aligned_cols=103  Identities=15%  Similarity=0.137  Sum_probs=64.1

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH--H
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY--E  129 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~--~  129 (198)
                      +.+.|+||+|....   .......+|.++++.+....+.   +......+     .++|.++++||+|+........  .
T Consensus       127 ~D~viidT~G~~~~---e~~i~~~aD~i~vv~~~~~~~e---l~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~~  195 (300)
T TIGR00750       127 YDVIIVETVGVGQS---EVDIANMADTFVVVTIPGTGDD---LQGIKAGL-----MEIADIYVVNKADGEGATNVTIARL  195 (300)
T ss_pred             CCEEEEeCCCCchh---hhHHHHhhceEEEEecCCccHH---HHHHHHHH-----hhhccEEEEEcccccchhHHHHHHH
Confidence            66889999985422   2235667888888865443332   22222222     1468899999999865431110  0


Q ss_pred             ----HHHHHHH---HhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          130 ----TAKAFAD---EIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       130 ----~~~~~~~---~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                          ....+..   .+..+++++|++++.|+++++++|.+...
T Consensus       196 ~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       196 MLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence                0011111   12246899999999999999999988754

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.30  E-value=8.3e-11  Score=96.10  Aligned_cols=119  Identities=18%  Similarity=0.205  Sum_probs=72.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc-cceeeeEEEEEEECCeEEEEEEEeCCCccccc-------cc---cc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS-TIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-------TI---TS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~---~~   70 (198)
                      +.++|+|+|.+|+||||++|.|++......... ..+...........+  ..+.++||||.....       .+   ..
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~Ik  194 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSSVK  194 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHHHH
Confidence            568999999999999999999998654332211 112222222233444  678999999965431       11   11


Q ss_pred             cccc--CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCC--CcEEEEEeCCCCCC
Q 043946           71 SYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN--VNKLLVGNKCDLTD  122 (198)
Q Consensus        71 ~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~p~iiv~nK~D~~~  122 (198)
                      .++.  ..|++|||..++.......-..++..+....+.+  ..+|||+|..|...
T Consensus       195 ~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       195 KFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            2333  4799999988763222112224445554444422  57899999999864

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=1.9e-10  Score=87.98  Aligned_cols=84  Identities=19%  Similarity=0.174  Sum_probs=60.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC----------------eEEEEEEEeCCCc----
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG----------------KTVKLQIWDTAGQ----   62 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~i~D~~g~----   62 (198)
                      .+++.|+|.||||||||+|++..........|..+++...-...+..                ....+.++|.+|.    
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            57999999999999999999997665444555555555444433221                2246899999982    


Q ss_pred             ---ccccccccccccCccEEEEEEECC
Q 043946           63 ---ERFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        63 ---~~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                         +........-++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence               344455555678899999999975

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.26  E-value=8.4e-11  Score=91.26  Aligned_cols=155  Identities=16%  Similarity=0.148  Sum_probs=106.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC---CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      -|+-.|.-..|||||++.+.+.   ..++.-...++.+.....+..+.  ..+.++|.||++++-......+...|.++|
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d--~~~~fIDvpgh~~~i~~miag~~~~d~alL   79 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED--GVMGFIDVPGHPDFISNLLAGLGGIDYALL   79 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC--CceEEeeCCCcHHHHHHHHhhhcCCceEEE
Confidence            4678899999999999999863   33444445555555544444444  589999999999887777777788999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH---hCCcEEEEeccCCCCHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE---IGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~---~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      |+++++.-.... -+.+..+... + ....++|++|+|..+...+ .+.++++...   -.++++.+|+.+|.||+++.+
T Consensus        80 vV~~deGl~~qt-gEhL~iLdll-g-i~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~  155 (447)
T COG3276          80 VVAADEGLMAQT-GEHLLILDLL-G-IKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELKN  155 (447)
T ss_pred             EEeCccCcchhh-HHHHHHHHhc-C-CCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHHH
Confidence            999975322211 2222223222 2 2345899999998764321 2223333322   246889999999999999999


Q ss_pred             HHHHHHH
Q 043946          159 AMTADIK  165 (198)
Q Consensus       159 ~l~~~~~  165 (198)
                      .|.+...
T Consensus       156 ~l~~L~~  162 (447)
T COG3276         156 ELIDLLE  162 (447)
T ss_pred             HHHHhhh
Confidence            9988874

>cd01855 YqeH YqeH

Probab=99.25  E-value=4.5e-11  Score=85.59  Aligned_cols=111  Identities=23%  Similarity=0.261  Sum_probs=76.4

Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhC
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIG  139 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~  139 (198)
                      +...+..+++++|++++|+|+.++..     .|...+... ..+.|+++|+||+|+.... ...+....+.     ...+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~-~~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF-GGNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh-cCCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhhcC
Confidence            46677889999999999999987542     122222222 2368999999999986432 2333344333     2233


Q ss_pred             C---cEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          140 I---PFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       140 ~---~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      .   .++++||+++.|+++++++|.+.+.            .+..+-+.+.++.+|++
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~------------~~~~~~~~G~~nvGKSt  142 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK------------KGGDVYVVGATNVGKST  142 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh------------cCCcEEEEcCCCCCHHH
Confidence            3   6899999999999999999988764            12346677777777765

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.25  E-value=4.8e-10  Score=85.85  Aligned_cols=129  Identities=23%  Similarity=0.298  Sum_probs=88.9

Q ss_pred             eEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChh-------hHHHHHHHHHHHHHhcC----CC
Q 043946           40 FKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE-------SFNNVKQWLNEIDRYAS----EN  108 (198)
Q Consensus        40 ~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s~~~~~~~~~~~~~~~~----~~  108 (198)
                      .....+.+.+  ..+.++|++|+..-...|.+++.+++++|||+++++-+       ....+.+-+..+.....    .+
T Consensus       185 I~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~  262 (354)
T KOG0082|consen  185 IVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFAN  262 (354)
T ss_pred             eeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCccccc
Confidence            4444555555  78899999999988899999999999999999987522       12333333333443333    46


Q ss_pred             CcEEEEEeCCCCCCCC---------------cCCHHHHHHHHHHh----------CCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          109 VNKLLVGNKCDLTDKK---------------VVSYETAKAFADEI----------GIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       109 ~p~iiv~nK~D~~~~~---------------~~~~~~~~~~~~~~----------~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      .++|+++||.|+..+.               ....+++..+....          .+-+..+.|.+..+|+.+|..+.+.
T Consensus       263 tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~  342 (354)
T KOG0082|consen  263 TSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDT  342 (354)
T ss_pred             CcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHH
Confidence            8999999999995310               12333443333221          2345677899999999999999998


Q ss_pred             HHHhhhc
Q 043946          164 IKNRMAS  170 (198)
Q Consensus       164 ~~~~~~~  170 (198)
                      +.+....
T Consensus       343 Ii~~nlk  349 (354)
T KOG0082|consen  343 IIQNNLK  349 (354)
T ss_pred             HHHHHHH
Confidence            8875544

>smart00053 DYNc Dynamin, GTPase

Probab=99.22  E-value=2e-10  Score=84.53  Aligned_cols=69  Identities=14%  Similarity=0.183  Sum_probs=42.8

Q ss_pred             EEEEEEeCCCccc-------------cccccccccc-CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeC
Q 043946           52 VKLQIWDTAGQER-------------FRTITSSYYR-GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNK  117 (198)
Q Consensus        52 ~~~~i~D~~g~~~-------------~~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK  117 (198)
                      ..+.++|+||...             ...+...|+. ..+++++|+|+...-.-.......   ......+.|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia---~~ld~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLA---KEVDPQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHH---HHHHHcCCcEEEEEEC
Confidence            3588999999642             1223455666 456999999886532211112222   2223347899999999


Q ss_pred             CCCCCC
Q 043946          118 CDLTDK  123 (198)
Q Consensus       118 ~D~~~~  123 (198)
                      .|..+.
T Consensus       202 ~D~~~~  207 (240)
T smart00053      202 LDLMDE  207 (240)
T ss_pred             CCCCCc
Confidence            998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.22  E-value=7.6e-11  Score=88.40  Aligned_cols=55  Identities=24%  Similarity=0.203  Sum_probs=40.2

Q ss_pred             CcEEEEEeCCCCCCCCcCCHHHHHHHHHHh--CCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          109 VNKLLVGNKCDLTDKKVVSYETAKAFADEI--GIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       109 ~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      .+-++|+||+|+........+...+..+..  .++++++|+++|.|++++++||.+.
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            466999999999653222333444444443  4789999999999999999999763

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.21  E-value=1.8e-11  Score=91.47  Aligned_cols=155  Identities=15%  Similarity=0.101  Sum_probs=99.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc--------cccccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--------RTITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~~~~~~   75 (198)
                      .-|.|+|..|+||||||++|......+...-..+.+........+.+ -.+.+.||.|.-+-        ......-...
T Consensus       179 pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg-~~vlltDTvGFisdLP~~LvaAF~ATLeeVae  257 (410)
T KOG0410|consen  179 PVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSG-NFVLLTDTVGFISDLPIQLVAAFQATLEEVAE  257 (410)
T ss_pred             ceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCC-cEEEEeechhhhhhCcHHHHHHHHHHHHHHhh
Confidence            35899999999999999999976655544444444444444445443 35778899984221        1112233467


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc----EEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN----KLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL  151 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p----~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~  151 (198)
                      +|.++-|.|++.|+--......+..+....-...|    ++=|-||+|..... .       -..+++  .+.+|+.+|.
T Consensus       258 adlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~-~-------e~E~n~--~v~isaltgd  327 (410)
T KOG0410|consen  258 ADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDE-V-------EEEKNL--DVGISALTGD  327 (410)
T ss_pred             cceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccccccccc-C-------ccccCC--ccccccccCc
Confidence            89999999999987544444454445444322223    34456777764321 1       111223  4788999999


Q ss_pred             CHHHHHHHHHHHHHHhhh
Q 043946          152 NVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~~  169 (198)
                      |++++...+-..+..-..
T Consensus       328 gl~el~~a~~~kv~~~t~  345 (410)
T KOG0410|consen  328 GLEELLKAEETKVASETT  345 (410)
T ss_pred             cHHHHHHHHHHHhhhhhe
Confidence            999999998888765443

>cd01859 MJ1464 MJ1464

Probab=99.15  E-value=1.4e-10  Score=80.38  Aligned_cols=93  Identities=24%  Similarity=0.264  Sum_probs=63.1

Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      .+..+.+.++|++++|+|+.++..... ..+...+   ...+.|+++|+||+|+.+...  .+....+....+.+++.+|
T Consensus         4 ~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~---~~~~~p~iiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iS   77 (156)
T cd01859           4 RLVRRIIKESDVVLEVLDARDPELTRS-RKLERYV---LELGKKLLIVLNKADLVPKEV--LEKWKSIKESEGIPVVYVS   77 (156)
T ss_pred             HHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHH---HhCCCcEEEEEEhHHhCCHHH--HHHHHHHHHhCCCcEEEEE
Confidence            456677788999999999987543211 1122222   123689999999999853211  1122233344567899999


Q ss_pred             ccCCCCHHHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~  165 (198)
                      ++++.|++++++.|.+.+.
T Consensus        78 a~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          78 AKERLGTKILRRTIKELAK   96 (156)
T ss_pred             ccccccHHHHHHHHHHHHh
Confidence            9999999999999987764

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.12  E-value=6.6e-10  Score=82.22  Aligned_cols=141  Identities=18%  Similarity=0.171  Sum_probs=91.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc----------------CCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD----------------DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      ..+|..+|.-+.|||||..++..                ...+++....+++.....+++...  ..+-..|+||+.+|-
T Consensus        12 hVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~--rhyahVDcPGHaDYv   89 (394)
T COG0050          12 HVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETAN--RHYAHVDCPGHADYV   89 (394)
T ss_pred             eeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCC--ceEEeccCCChHHHH
Confidence            47899999999999999887631                112333334444444445555554  567778999999987


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCCCCCCcC---CHHHHHHHHHHhCC--
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTDKKVV---SYETAKAFADEIGI--  140 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-iiv~nK~D~~~~~~~---~~~~~~~~~~~~~~--  140 (198)
                      .....-.-++|+.|+|+.+.|....+.-+. +-..+   .-+.|. ++++||+|+.++.+.   -..+++++...++.  
T Consensus        90 KNMItgAaqmDgAILVVsA~dGpmPqTrEH-iLlar---qvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~g  165 (394)
T COG0050          90 KNMITGAAQMDGAILVVAATDGPMPQTREH-ILLAR---QVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPG  165 (394)
T ss_pred             HHHhhhHHhcCccEEEEEcCCCCCCcchhh-hhhhh---hcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCC
Confidence            766666778999999999998433221111 11111   225654 556699999875432   12356677777774  


Q ss_pred             ---cEEEEeccC
Q 043946          141 ---PFMETSAKD  149 (198)
Q Consensus       141 ---~~~~~S~~~  149 (198)
                         |++.-|++.
T Consensus       166 d~~Pii~gSal~  177 (394)
T COG0050         166 DDTPIIRGSALK  177 (394)
T ss_pred             CCcceeechhhh
Confidence               567767654

>PRK12289 GTPase RsgA; Reviewed

Probab=99.11  E-value=2.8e-10  Score=88.27  Aligned_cols=90  Identities=14%  Similarity=0.204  Sum_probs=65.5

Q ss_pred             cccccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      +....+.++|.+++|+|+.++. ....+..|+..+.   ..++|+++|+||+|+.....  .+........++..++.+|
T Consensus        82 L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~---~~~ip~ILVlNK~DLv~~~~--~~~~~~~~~~~g~~v~~iS  156 (352)
T PRK12289         82 LDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAE---STGLEIVLCLNKADLVSPTE--QQQWQDRLQQWGYQPLFIS  156 (352)
T ss_pred             eechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHH---HCCCCEEEEEEchhcCChHH--HHHHHHHHHhcCCeEEEEE
Confidence            3445688999999999998765 3445566665442   24789999999999964321  1222334456788899999


Q ss_pred             ccCCCCHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTA  162 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~  162 (198)
                      |+++.|+++++++|..
T Consensus       157 A~tg~GI~eL~~~L~~  172 (352)
T PRK12289        157 VETGIGLEALLEQLRN  172 (352)
T ss_pred             cCCCCCHHHHhhhhcc
Confidence            9999999999998854

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.10  E-value=2.6e-09  Score=79.40  Aligned_cols=106  Identities=16%  Similarity=0.150  Sum_probs=65.9

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.|++|.|-....   -.....+|.+++|.=+.-.+.++.+..-+   .+.     --++|+||.|...... ...++
T Consensus       144 ~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~Gi---mEi-----aDi~vINKaD~~~A~~-a~r~l  211 (323)
T COG1703         144 YDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGI---MEI-----ADIIVINKADRKGAEK-AAREL  211 (323)
T ss_pred             CCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhh---hhh-----hheeeEeccChhhHHH-HHHHH
Confidence            457888887743322   22345589999988776666554444432   222     2388999999654321 11111


Q ss_pred             HHHHH---------HhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          132 KAFAD---------EIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       132 ~~~~~---------~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      .....         .+.-+++.+||.+|+|++++++.+.+...-...
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~  258 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTE  258 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHh
Confidence            21111         123579999999999999999999877654333

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.07  E-value=9.3e-10  Score=89.28  Aligned_cols=117  Identities=22%  Similarity=0.287  Sum_probs=81.3

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc-----------------cceeeeEEEEE---EECCeEEEEEEEeCC
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS-----------------TIGVDFKIRTV---EQDGKTVKLQIWDTA   60 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~-----------------~~~~~~~~~~~---~~~~~~~~~~i~D~~   60 (198)
                      +...++.++|+-++|||+|..-|...+-+.-...                 ...+.....++   ...++.+-++++|||
T Consensus       126 ~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTP  205 (971)
T KOG0468|consen  126 ERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTP  205 (971)
T ss_pred             ceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCC
Confidence            3567899999999999999999975433221110                 11111111111   124556779999999


Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      |+-.+.......+..+|++++|+|+...-.+..    -..+......+.|+++|+||+|..
T Consensus       206 GHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt----Er~ikhaiq~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  206 GHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT----ERIIKHAIQNRLPIVVVINKVDRL  262 (971)
T ss_pred             CcccchHHHHHHhhhcceEEEEEEcccCceeeH----HHHHHHHHhccCcEEEEEehhHHH
Confidence            999999889999999999999999987655332    222333344579999999999963

>PRK12288 GTPase RsgA; Reviewed

Probab=99.06  E-value=1e-09  Score=85.14  Aligned_cols=86  Identities=23%  Similarity=0.253  Sum_probs=65.1

Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                      .++|.+++|++.....++..+..|+.....   .++|+++|+||+|+...... ...+........+.+++++||+++.|
T Consensus       119 ANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~G  195 (347)
T PRK12288        119 ANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEG  195 (347)
T ss_pred             EEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcC
Confidence            458999999999877788888888765532   36899999999999643211 11223334456678999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          153 VEQAFMAMTA  162 (198)
Q Consensus       153 i~~~~~~l~~  162 (198)
                      +++++++|..
T Consensus       196 ideL~~~L~~  205 (347)
T PRK12288        196 LEELEAALTG  205 (347)
T ss_pred             HHHHHHHHhh
Confidence            9999998854

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.05  E-value=2.4e-10  Score=83.66  Aligned_cols=103  Identities=15%  Similarity=0.192  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.|++|.|-...   ......-+|.+++|.-+.-.+.++.+..-+-   +     +.-++|+||.|.+..+. ...++
T Consensus       122 ~D~IiiETVGvGQs---E~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGim---E-----iaDi~vVNKaD~~gA~~-~~~~l  189 (266)
T PF03308_consen  122 FDVIIIETVGVGQS---EVDIADMADTVVLVLVPGLGDEIQAIKAGIM---E-----IADIFVVNKADRPGADR-TVRDL  189 (266)
T ss_dssp             -SEEEEEEESSSTH---HHHHHTTSSEEEEEEESSTCCCCCTB-TTHH---H-----H-SEEEEE--SHHHHHH-HHHHH
T ss_pred             CCEEEEeCCCCCcc---HHHHHHhcCeEEEEecCCCccHHHHHhhhhh---h-----hccEEEEeCCChHHHHH-HHHHH
Confidence            45778888763221   2224556899999999877665443333222   1     23489999999654322 12333


Q ss_pred             HHHHHHh-------CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          132 KAFADEI-------GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       132 ~~~~~~~-------~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      +......       .-+++.+||.++.|++++++.|.+....
T Consensus       190 ~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~  231 (266)
T PF03308_consen  190 RSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDY  231 (266)
T ss_dssp             HHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            3333321       2489999999999999999998775543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.05  E-value=5.9e-09  Score=79.53  Aligned_cols=139  Identities=21%  Similarity=0.320  Sum_probs=85.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC----------CcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc----
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS----------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT----   67 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----   67 (198)
                      ..+.|+++|++|.|||||+|.|++......          ..++.........+.-++..+.++++||||..+.-.    
T Consensus        22 i~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~  101 (373)
T COG5019          22 IDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKC  101 (373)
T ss_pred             CceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccccccccc
Confidence            468999999999999999999987643222          223444555556666677788999999999332100    


Q ss_pred             ----------------------ccc--ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           68 ----------------------ITS--SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        68 ----------------------~~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                                            .+.  ..=.++|+++|.+.++.. .+..+  .+..+.+. ...+-+|=|+.|+|....
T Consensus       102 we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh-~l~~~--DIe~Mk~l-s~~vNlIPVI~KaD~lT~  177 (373)
T COG5019         102 WEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGH-GLKPL--DIEAMKRL-SKRVNLIPVIAKADTLTD  177 (373)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCC-CCCHH--HHHHHHHH-hcccCeeeeeeccccCCH
Confidence                                  011  112456888888876642 11111  11122222 224667788899998643


Q ss_pred             CcC--CHHHHHHHHHHhCCcEEE
Q 043946          124 KVV--SYETAKAFADEIGIPFME  144 (198)
Q Consensus       124 ~~~--~~~~~~~~~~~~~~~~~~  144 (198)
                      .+.  -.+.+.+....+++++|.
T Consensus       178 ~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         178 DELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             HHHHHHHHHHHHHHHHhCCceeC
Confidence            322  234566677777887774

>smart00275 G_alpha G protein alpha subunit

Probab=99.04  E-value=1.3e-08  Score=79.17  Aligned_cols=127  Identities=21%  Similarity=0.226  Sum_probs=86.7

Q ss_pred             eEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCCh----------hhHHHHHHHHHHHHHh-cCCC
Q 043946           40 FKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEIDRY-ASEN  108 (198)
Q Consensus        40 ~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~  108 (198)
                      +....+.+++  ..+.+||.+|+......|..++.+++++|||+|+++-          ..+......+..+... .-.+
T Consensus       174 i~~~~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~  251 (342)
T smart00275      174 IQETAFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFAN  251 (342)
T ss_pred             eEEEEEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccC
Confidence            4445566666  7789999999999999999999999999999999963          2333333333333221 2257


Q ss_pred             CcEEEEEeCCCCCCCC---------------cCCHHHHHHHHHH-----h------CCcEEEEeccCCCCHHHHHHHHHH
Q 043946          109 VNKLLVGNKCDLTDKK---------------VVSYETAKAFADE-----I------GIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       109 ~p~iiv~nK~D~~~~~---------------~~~~~~~~~~~~~-----~------~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      .|+++++||.|+....               ....+.+..+...     .      .+-...++|.+..++..+|+.+.+
T Consensus       252 ~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~  331 (342)
T smart00275      252 TSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKD  331 (342)
T ss_pred             CcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHH
Confidence            8999999999984210               0123333333221     1      133567889999999999999888


Q ss_pred             HHHHhh
Q 043946          163 DIKNRM  168 (198)
Q Consensus       163 ~~~~~~  168 (198)
                      .+.+..
T Consensus       332 ~I~~~~  337 (342)
T smart00275      332 IILQRN  337 (342)
T ss_pred             HHHHHH
Confidence            887654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.03  E-value=2.7e-09  Score=76.97  Aligned_cols=163  Identities=19%  Similarity=0.256  Sum_probs=95.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc---cccccccCccEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT---ITSSYYRGAHGII   80 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~d~~i   80 (198)
                      .+|++||...+||||+- ..+..+.++...-....+.....-.+.+.-+.+.+||.||+-.+-.   -....++.+-++|
T Consensus        28 p~ilLMG~rRsGKsSI~-KVVFhkMsPneTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALi  106 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQ-KVVFHKMSPNETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALI  106 (347)
T ss_pred             ceEEEEeecccCcchhh-heeeeccCCCceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEE
Confidence            57999999999999955 4444444433222211111111112233446799999999765421   2345678999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh--cCCCCcEEEEEeCCCCCCCCcCC------HHHHHHH-----HHHhCCcEEEEec
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRY--ASENVNKLLVGNKCDLTDKKVVS------YETAKAF-----ADEIGIPFMETSA  147 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~--~~~~~p~iiv~nK~D~~~~~~~~------~~~~~~~-----~~~~~~~~~~~S~  147 (198)
                      ||+|+.+. ....+..+...+.+.  .++++.+=+++.|.|...++...      .+....-     .....+.|+.+|.
T Consensus       107 fvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTSI  185 (347)
T KOG3887|consen  107 FVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTSI  185 (347)
T ss_pred             EEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEeee
Confidence            99999763 234444444333332  22467788899999975432110      0111111     1122356788888


Q ss_pred             cCCCCHHHHHHHHHHHHHHhhh
Q 043946          148 KDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      .+. .|-|+|..+.+.+..+.+
T Consensus       186 yDH-SIfEAFSkvVQkLipqLp  206 (347)
T KOG3887|consen  186 YDH-SIFEAFSKVVQKLIPQLP  206 (347)
T ss_pred             cch-HHHHHHHHHHHHHhhhch
Confidence            776 477888888877765443

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.02  E-value=1.4e-09  Score=75.25  Aligned_cols=114  Identities=21%  Similarity=0.158  Sum_probs=70.2

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHH
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      |++++|+|+.++.+...  .++.. ......++|+++|+||+|+...... .+.+..+....+..++.+|++++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            78999999988754321  12221 1222346899999999998532111 11122232333456899999999999999


Q ss_pred             HHHHHHHHHHhhhcCc-CCCCCCCCccccCCCCCCCCCC
Q 043946          157 FMAMTADIKNRMASQP-AMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       157 ~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++.|.+...+...... .........+.+.+.++.+|++
T Consensus        77 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~GKst  115 (155)
T cd01849          77 ESAFTKQTNSNLKSYAKDGKLKKSITVGVIGYPNVGKSS  115 (155)
T ss_pred             HHHHHHHhHHHHHHHHhccccccCcEEEEEccCCCCHHH
Confidence            9998776533221111 1112345667788888888875

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.01  E-value=2.8e-09  Score=77.65  Aligned_cols=151  Identities=22%  Similarity=0.189  Sum_probs=91.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-------cccccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-------RFRTITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~~~d   77 (198)
                      ++.++|.|++||||++..|.+..-.......++.....-.....+  -++++.|.||.-       ..........+.|+
T Consensus        61 ~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavartcn  138 (358)
T KOG1487|consen   61 RVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCN  138 (358)
T ss_pred             eeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeeccc
Confidence            789999999999999999986432211111122222222233344  468899999932       23345566778899


Q ss_pred             EEEEEEECCChhhHHHHHH-HHHH-------------------------------------HHHh---------------
Q 043946           78 GIIIVYDVTDQESFNNVKQ-WLNE-------------------------------------IDRY---------------  104 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~-~~~~-------------------------------------~~~~---------------  104 (198)
                      .+++|.|+..|-+-..+.+ .++-                                     +.++               
T Consensus       139 li~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~DaT~  218 (358)
T KOG1487|consen  139 LIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDATA  218 (358)
T ss_pred             EEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCcch
Confidence            9999999766544332221 1111                                     0000               


Q ss_pred             ---------cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          105 ---------ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       105 ---------~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                               ...-+|.+.++||+|...     .+++.-.   +.+ ..+++||.+++|++++++.+.+.+.
T Consensus       219 DdLIdvVegnr~yVp~iyvLNkIdsIS-----iEELdii---~~iphavpISA~~~wn~d~lL~~mweyL~  281 (358)
T KOG1487|consen  219 DDLIDVVEGNRIYVPCIYVLNKIDSIS-----IEELDII---YTIPHAVPISAHTGWNFDKLLEKMWEYLK  281 (358)
T ss_pred             hhhhhhhccCceeeeeeeeecccceee-----eecccee---eeccceeecccccccchHHHHHHHhhcch
Confidence                     001267788888888642     2222211   122 4688999999999999999988774

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.99  E-value=1.8e-09  Score=84.57  Aligned_cols=113  Identities=27%  Similarity=0.330  Sum_probs=80.1

Q ss_pred             cccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHH----HHHHH
Q 043946           62 QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAK----AFADE  137 (198)
Q Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~----~~~~~  137 (198)
                      ++.+..+...+...++++++|+|+.+..     ..|...+.+... +.|+++|+||+|+... ....+.+.    ++++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~-~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVG-GNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhC-CCCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHH
Confidence            4567777888889999999999997754     224444444433 5799999999998643 23334444    34556


Q ss_pred             hCC---cEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          138 IGI---PFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       138 ~~~---~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      .++   .++.+||+++.|++++|+.|.+...             ...+.+.+.++.+||+
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~~~-------------~~~v~~vG~~nvGKSt  169 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKARN-------------KKDVYVVGVTNVGKSS  169 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHHhC-------------CCeEEEECCCCCCHHH
Confidence            666   4899999999999999999865410             1466677777777765

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=1.7e-08  Score=77.51  Aligned_cols=157  Identities=19%  Similarity=0.277  Sum_probs=93.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCC---------CcccceeeeEEEEEEECCeEEEEEEEeCCCcccc--------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDS---------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--------   65 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------   65 (198)
                      .+.++++|++|.|||||||.|....+...         ...+.........+.-+|..+++++.||||..+.        
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~  100 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWR  100 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccch
Confidence            58899999999999999999876533221         1223344455555666777889999999993221        


Q ss_pred             -----------------cccccccc--cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           66 -----------------RTITSSYY--RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        66 -----------------~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                                       ..+....+  .++|+++|.+.+... .+..+  .+..+... ...+.+|-|+-|+|.....+.
T Consensus       101 pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~--Di~~Mk~l-~~~vNiIPVI~KaD~lT~~El  176 (366)
T KOG2655|consen  101 PIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPL--DIEFMKKL-SKKVNLIPVIAKADTLTKDEL  176 (366)
T ss_pred             hhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHh--hHHHHHHH-hccccccceeeccccCCHHHH
Confidence                             01111222  367888888886642 11111  11112222 235677888899998654322


Q ss_pred             --CHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          127 --SYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       127 --~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                        -...+.+.+..++++++.-.....   ++.+....+.+..
T Consensus       177 ~~~K~~I~~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l~~  215 (366)
T KOG2655|consen  177 NQFKKRIRQDIEEHNIKVFDFPTDES---DEELKEEEQDLKS  215 (366)
T ss_pred             HHHHHHHHHHHHHcCcceecCCCCcc---hhhhHHHHHHHhh
Confidence              245566677778887776555544   4444333444443

>cd01858 NGP_1 NGP-1

Probab=98.99  E-value=1.6e-09  Score=75.13  Aligned_cols=113  Identities=19%  Similarity=0.171  Sum_probs=69.6

Q ss_pred             cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC
Q 043946           72 YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL  151 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~  151 (198)
                      .+..+|++++|+|+.++..- ........+... ..+.|+++|+||+|+...... ...+..+.+.+....+.+|++++.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~-~~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~   81 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGT-RCKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPF   81 (157)
T ss_pred             hhhhCCEEEEEEECCCCccc-cCHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccccc
Confidence            46789999999999886321 112222233322 335899999999999533211 111222222222235789999999


Q ss_pred             CHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          152 NVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      |+++++++|.+.....       .......+...+.++.+||+
T Consensus        82 ~~~~L~~~l~~~~~~~-------~~~~~~~v~~~G~~nvGKSt  117 (157)
T cd01858          82 GKGSLIQLLRQFSKLH-------SDKKQISVGFIGYPNVGKSS  117 (157)
T ss_pred             cHHHHHHHHHHHHhhh-------ccccceEEEEEeCCCCChHH
Confidence            9999999987654321       01123455578888888876

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.98  E-value=2.3e-09  Score=85.26  Aligned_cols=158  Identities=24%  Similarity=0.407  Sum_probs=116.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+|+.|+|..++|||+|+.+++.+.+.....+.-  ....+++..++....+.+.|-+|.-     ...|-..+|++|||
T Consensus        30 elk~givg~~~sgktalvhr~ltgty~~~e~~e~--~~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIfv  102 (749)
T KOG0705|consen   30 ELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEG--GRFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFV  102 (749)
T ss_pred             hhheeeeecccCCceeeeeeeccceeccccCCcC--ccceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEEE
Confidence            3789999999999999999999888866544433  3556777788888888888988732     23355668999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCC--CCcCCHHHHHHHH-HHhCCcEEEEeccCCCCHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD--KKVVSYETAKAFA-DEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~--~~~~~~~~~~~~~-~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      |...+.+++..+......+..+.. ..+|+++++++.-...  .+.+......+++ +...+.++++++..|.+++.+|.
T Consensus       103 f~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~  182 (749)
T KOG0705|consen  103 FSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQ  182 (749)
T ss_pred             EEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHH
Confidence            999999999888887766654433 4577777776543321  2223344444443 44457899999999999999999


Q ss_pred             HHHHHHHHh
Q 043946          159 AMTADIKNR  167 (198)
Q Consensus       159 ~l~~~~~~~  167 (198)
                      .+...+...
T Consensus       183 ~~~~k~i~~  191 (749)
T KOG0705|consen  183 EVAQKIVQL  191 (749)
T ss_pred             HHHHHHHHH
Confidence            998877654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.98  E-value=3.3e-09  Score=80.62  Aligned_cols=88  Identities=17%  Similarity=0.223  Sum_probs=66.6

Q ss_pred             cccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc
Q 043946           70 SSYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK  148 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  148 (198)
                      ...+.++|.+++|+|+.++. ++..+..|+..+..   .++|+++|+||+|+.+..  ............+.+++.+|++
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECC
Confidence            33578899999999999887 77777777766544   368999999999996431  1122233344567899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTA  162 (198)
Q Consensus       149 ~~~~i~~~~~~l~~  162 (198)
                      ++.|+++++.+|..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999988753

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.95  E-value=4.3e-09  Score=80.41  Aligned_cols=86  Identities=17%  Similarity=0.253  Sum_probs=63.3

Q ss_pred             cccCccEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC
Q 043946           72 YYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS  150 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~  150 (198)
                      ...++|.+++|+|+.++.+... +..|+..+..   .++|+++|+||+|+.+... ..+......+..+.+++++|++++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            3588999999999988765443 4566655533   3689999999999963221 122334455567889999999999


Q ss_pred             CCHHHHHHHHH
Q 043946          151 LNVEQAFMAMT  161 (198)
Q Consensus       151 ~~i~~~~~~l~  161 (198)
                      .|++++++.|.
T Consensus       153 ~gi~~L~~~l~  163 (298)
T PRK00098        153 EGLDELKPLLA  163 (298)
T ss_pred             ccHHHHHhhcc
Confidence            99999998873

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.94  E-value=9.2e-09  Score=74.18  Aligned_cols=145  Identities=20%  Similarity=0.263  Sum_probs=85.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC---------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD---------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------   65 (198)
                      ..++|+|+|.+|.|||||+|.|...+...         ....+.........+.-++...+++++||||..++       
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncW  124 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCW  124 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchh
Confidence            45899999999999999999997543322         11223344445556667787889999999994322       


Q ss_pred             -------------------ccccccccc--CccEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCC-
Q 043946           66 -------------------RTITSSYYR--GAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD-  122 (198)
Q Consensus        66 -------------------~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~-  122 (198)
                                         ...+...+.  ++++++|.+.++. .++..+ ..++..+.+    -.-++-|+.|.|-.. 
T Consensus       125 ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~----vvNvvPVIakaDtlTl  199 (336)
T KOG1547|consen  125 EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTE----VVNVVPVIAKADTLTL  199 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhh----hheeeeeEeecccccH
Confidence                               111222233  3567777776653 222111 122222322    245566778999642 


Q ss_pred             -CCcCCHHHHHHHHHHhCCcEEEEeccCCC
Q 043946          123 -KKVVSYETAKAFADEIGIPFMETSAKDSL  151 (198)
Q Consensus       123 -~~~~~~~~~~~~~~~~~~~~~~~S~~~~~  151 (198)
                       ++..=.+.+.+-..++++.+++-.+.+-.
T Consensus       200 eEr~~FkqrI~~el~~~~i~vYPq~~fded  229 (336)
T KOG1547|consen  200 EERSAFKQRIRKELEKHGIDVYPQDSFDED  229 (336)
T ss_pred             HHHHHHHHHHHHHHHhcCcccccccccccc
Confidence             22112345666677788888876665543

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.92  E-value=3.7e-09  Score=72.05  Aligned_cols=54  Identities=22%  Similarity=0.294  Sum_probs=38.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      +++++|.+|+|||||+|+|.+..... .....+.+.....+.+++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            78999999999999999999766532 222223344445555554   5799999995

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.91  E-value=6.3e-09  Score=79.40  Aligned_cols=118  Identities=20%  Similarity=0.282  Sum_probs=74.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCccccee-eeEEEEEEE------CCe-------------------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGV-DFKIRTVEQ------DGK-------------------------   50 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~-~~~~~~~~~------~~~-------------------------   50 (198)
                      ..-|+++|.-+.||||||+.|+...++..+.-.-++ ++-...+.-      +|.                         
T Consensus        58 KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~  137 (532)
T KOG1954|consen   58 KPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFM  137 (532)
T ss_pred             CceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHH
Confidence            456899999999999999999988776533322111 111111111      110                         


Q ss_pred             --------EEEEEEEeCCCccc-----------ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE
Q 043946           51 --------TVKLQIWDTAGQER-----------FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK  111 (198)
Q Consensus        51 --------~~~~~i~D~~g~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~  111 (198)
                              .-.+.++|+||.-+           |.....-|..++|.++++||+..-+--+++...+..+   .+..-.+
T Consensus       138 csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL---kG~Edki  214 (532)
T KOG1954|consen  138 CSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDAL---KGHEDKI  214 (532)
T ss_pred             HhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHh---hCCccee
Confidence                    01378999999422           2222333678999999999987654444555555444   4445678


Q ss_pred             EEEEeCCCCCCC
Q 043946          112 LLVGNKCDLTDK  123 (198)
Q Consensus       112 iiv~nK~D~~~~  123 (198)
                      -||+||.|..+.
T Consensus       215 RVVLNKADqVdt  226 (532)
T KOG1954|consen  215 RVVLNKADQVDT  226 (532)
T ss_pred             EEEeccccccCH
Confidence            889999998643

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.90  E-value=4.8e-09  Score=73.72  Aligned_cols=55  Identities=25%  Similarity=0.347  Sum_probs=38.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      .++++++|.||+|||||+|+|.+...... .+..+++.....+..+.   .+.++||||
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~-~~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACNV-GATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccccee-cCCCCeEcceEEEEeCC---CEEEEECcC
Confidence            47999999999999999999997554221 22233344445554443   578999998

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.90  E-value=2.7e-09  Score=78.40  Aligned_cols=152  Identities=21%  Similarity=0.206  Sum_probs=88.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc-cceeeeEEEEEEECCeEEEEEEEeCCCcc----------ccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS-TIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTITS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~   70 (198)
                      ...++++.|.+|+|||+|+|-++..+....... ..+.+.....+.++.   .+.+.|.||-.          ++.....
T Consensus       135 ~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~---~~~~vDlPG~~~a~y~~~~~~d~~~~t~  211 (320)
T KOG2486|consen  135 KRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGK---SWYEVDLPGYGRAGYGFELPADWDKFTK  211 (320)
T ss_pred             CCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccc---eEEEEecCCcccccCCccCcchHhHhHH
Confidence            457899999999999999999986543332222 444444445555553   68888999921          1222233


Q ss_pred             ccccC---ccEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc----CCHHHHHHHHHH----
Q 043946           71 SYYRG---AHGIIIVYDVTDQES--FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV----VSYETAKAFADE----  137 (198)
Q Consensus        71 ~~~~~---~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~----~~~~~~~~~~~~----  137 (198)
                      .|+.+   ---+.+++|++-+-.  -.....|..      ..++|+.+|+||+|......    .....+....+.    
T Consensus       212 ~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~g------e~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~  285 (320)
T KOG2486|consen  212 SYLLERENLVRVFLLVDASVPIQPTDNPEIAWLG------ENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRG  285 (320)
T ss_pred             HHHHhhhhhheeeeeeeccCCCCCCChHHHHHHh------hcCCCeEEeeehhhhhhhccccccCccccceeehhhcccc
Confidence            33322   234555667664321  112233332      34899999999999753211    111222221111    


Q ss_pred             ---hCCcEEEEeccCCCCHHHHHHHHHH
Q 043946          138 ---IGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       138 ---~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                         ...+.+.+|+.++.|+++++-.+.+
T Consensus       286 ~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  286 VFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             ceeccCCceeeecccccCceeeeeehhh
Confidence               1235567999999999998766544

>cd01856 YlqF YlqF

Probab=98.90  E-value=3e-09  Score=74.88  Aligned_cols=120  Identities=19%  Similarity=0.099  Sum_probs=74.8

Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      ......+.++|++++|+|+.++..... ..+..   ..  .+.|+++|+||+|+.+...  .....++.+..+..++.+|
T Consensus        11 ~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~---~~--~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~vi~iS   82 (171)
T cd01856          11 RQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEK---IL--GNKPRIIVLNKADLADPKK--TKKWLKYFESKGEKVLFVN   82 (171)
T ss_pred             HHHHHHHhhCCEEEEEeeccCccCcCC-hhhHh---Hh--cCCCEEEEEehhhcCChHH--HHHHHHHHHhcCCeEEEEE
Confidence            344567789999999999987543211 11111   11  2479999999999853211  1122223333345689999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          147 AKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++++.|++++.+.|...+............+....+..-+.+..+|++
T Consensus        83 a~~~~gi~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~G~~~vGKst  130 (171)
T cd01856          83 AKSGKGVKKLLKAAKKLLKDIEKLKAKGLLPRGIRAMVVGIPNVGKST  130 (171)
T ss_pred             CCCcccHHHHHHHHHHHHHHHhhhhhcccCCCCeEEEEECCCCCCHHH
Confidence            999999999999998876432222222223333466677777777765

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01858 NGP_1 NGP-1

Probab=98.86  E-value=9.7e-09  Score=71.24  Aligned_cols=55  Identities=16%  Similarity=0.195  Sum_probs=36.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      .++|+++|.+|||||||+|+|.+..... ..+..+.+.....+..+.   .+.++||||
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKVCK-VAPIPGETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCcee-eCCCCCeeEeEEEEEcCC---CEEEEECcC
Confidence            4678999999999999999998754322 122223333334444332   367889998

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.85  E-value=3.1e-08  Score=76.03  Aligned_cols=154  Identities=18%  Similarity=0.146  Sum_probs=94.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCC--------------cccceeeeEEEEEEECCe------------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSY--------------ISTIGVDFKIRTVEQDGK------------------   50 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~------------------   50 (198)
                      .+.+.++|..+.|||||.-.|..+..+.-.              ....+.+.....+-+++.                  
T Consensus       117 hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~~vv  196 (527)
T COG5258         117 HVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKAAVV  196 (527)
T ss_pred             eEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHhHhh
Confidence            567899999999999999888654432211              111222223333333221                  


Q ss_pred             ---EEEEEEEeCCCccccc--ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           51 ---TVKLQIWDTAGQERFR--TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        51 ---~~~~~i~D~~g~~~~~--~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                         +.-+.+.|+.|++.+.  .++..+-++.|..++++.+++.-+-. ..+.+..+..   -+.|++++++|+|+..+..
T Consensus       197 ~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~-tkEHLgi~~a---~~lPviVvvTK~D~~~ddr  272 (527)
T COG5258         197 KRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKM-TKEHLGIALA---MELPVIVVVTKIDMVPDDR  272 (527)
T ss_pred             hhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchh-hhHhhhhhhh---hcCCEEEEEEecccCcHHH
Confidence               1337889999999774  34455667899999999998864421 1223332222   2689999999999975432


Q ss_pred             CC--HHHHHHHHHH----------------------hC---CcEEEEeccCCCCHHHHHHHH
Q 043946          126 VS--YETAKAFADE----------------------IG---IPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus       126 ~~--~~~~~~~~~~----------------------~~---~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +.  .+++.+..+.                      .+   +|++.+|+.+|.|++-+.+.+
T Consensus       273 ~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f  334 (527)
T COG5258         273 FQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFF  334 (527)
T ss_pred             HHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHH
Confidence            21  1222222221                      11   478999999999987655543

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.85  E-value=7.4e-08  Score=78.70  Aligned_cols=143  Identities=17%  Similarity=0.241  Sum_probs=81.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc-cceeee----------------------------------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS-TIGVDF----------------------------------------   40 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~-~~~~~~----------------------------------------   40 (198)
                      ..+||+|.|..++||||++|+++..+..+...- ++.+-.                                        
T Consensus       108 ~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~  187 (749)
T KOG0448|consen  108 RHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLG  187 (749)
T ss_pred             cccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccC
Confidence            468999999999999999999976544332211 110000                                        


Q ss_pred             --EEEEEEECCeE-----EEEEEEeCCCcc---cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc
Q 043946           41 --KIRTVEQDGKT-----VKLQIWDTAGQE---RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN  110 (198)
Q Consensus        41 --~~~~~~~~~~~-----~~~~i~D~~g~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p  110 (198)
                        ....+-++...     -.+.+.|.||.+   ....-...+...+|++|||.++.+.-...+-. ++   ......+..
T Consensus       188 ~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~-Ff---~~vs~~Kpn  263 (749)
T KOG0448|consen  188 AGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQ-FF---HKVSEEKPN  263 (749)
T ss_pred             cceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHH-HH---HHhhccCCc
Confidence              00001111110     025788999844   34444566778899999999998765432222 22   222222334


Q ss_pred             EEEEEeCCCCCCCCcCCHHHHHHHHHHhC------C--cEEEEecc
Q 043946          111 KLLVGNKCDLTDKKVVSYETAKAFADEIG------I--PFMETSAK  148 (198)
Q Consensus       111 ~iiv~nK~D~~~~~~~~~~~~~~~~~~~~------~--~~~~~S~~  148 (198)
                      +.|+.||+|..-..+...+.+.+....+.      +  .++.+|++
T Consensus       264 iFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  264 IFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             EEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            55566899986554444555554433332      1  46788854

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.84  E-value=2.3e-07  Score=72.48  Aligned_cols=151  Identities=17%  Similarity=0.268  Sum_probs=86.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC-----------------CCCCCCc-ccc------eeeeEEEEEEE-CCeEEEEEEEe
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD-----------------SYLDSYI-STI------GVDFKIRTVEQ-DGKTVKLQIWD   58 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~-----------------~~~~~~~-~~~------~~~~~~~~~~~-~~~~~~~~i~D   58 (198)
                      +=|.|+||..+||||||+||...                 ..+++.. .++      ........+.+ ++..++++++|
T Consensus        18 IYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLiD   97 (492)
T PF09547_consen   18 IYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLID   97 (492)
T ss_pred             eEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEEe
Confidence            44789999999999999998421                 1111110 000      01112223333 46678999999


Q ss_pred             CCCcc-------------------ccccc----------ccccc--cCccEEEEEEECCC----hhhHHHH-HHHHHHHH
Q 043946           59 TAGQE-------------------RFRTI----------TSSYY--RGAHGIIIVYDVTD----QESFNNV-KQWLNEID  102 (198)
Q Consensus        59 ~~g~~-------------------~~~~~----------~~~~~--~~~d~~i~v~d~~~----~~s~~~~-~~~~~~~~  102 (198)
                      +.|.-                   +|+..          ....+  +..-++++.-|.+-    ++.+..+ +...+.+.
T Consensus        98 CVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~ELk  177 (492)
T PF09547_consen   98 CVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEELK  177 (492)
T ss_pred             ecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHHH
Confidence            99810                   01000          01111  12346666666542    3344333 34555555


Q ss_pred             HhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC--CCCHHHHHHH
Q 043946          103 RYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD--SLNVEQAFMA  159 (198)
Q Consensus       103 ~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~--~~~i~~~~~~  159 (198)
                      ..   ++|+++++|-.+.....  ..+...++..++++++++++...  ...|..+|+.
T Consensus       178 ~i---gKPFvillNs~~P~s~e--t~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~  231 (492)
T PF09547_consen  178 EI---GKPFVILLNSTKPYSEE--TQELAEELEEKYDVPVLPVNCEQLREEDITRILEE  231 (492)
T ss_pred             Hh---CCCEEEEEeCCCCCCHH--HHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHH
Confidence            44   89999999998864332  45667778889999998888754  3344444443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>cd01856 YlqF YlqF

Probab=98.79  E-value=2.1e-08  Score=70.60  Aligned_cols=56  Identities=23%  Similarity=0.290  Sum_probs=39.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      .++++++|.+|+|||||+|+|.+.... ......+++.....+..+   ..+.+|||||.
T Consensus       115 ~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         115 GIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            478999999999999999999986653 222222344444545554   35789999994

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.79  E-value=1.6e-08  Score=76.37  Aligned_cols=85  Identities=20%  Similarity=0.158  Sum_probs=63.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC---------------eEEEEEEEeCCCcc---
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG---------------KTVKLQIWDTAGQE---   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~i~D~~g~~---   63 (198)
                      ++++|.|+|.|+||||||+|.|..........|..+++.....+.+..               .+-.++++|++|.-   
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            468999999999999999999998877777777777776666655432               23468999999832   


Q ss_pred             ----cccccccccccCccEEEEEEECC
Q 043946           64 ----RFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        64 ----~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                          ........-++.+|+++-|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence                23333444567899999998864

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.77  E-value=7.1e-08  Score=85.94  Aligned_cols=112  Identities=21%  Similarity=0.237  Sum_probs=69.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCC------CcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------ccccccc
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDS------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSS   71 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~   71 (198)
                      .+|+|++|+||||++++- +..++-.      ...+.+.+.. ..+.+..   ...++|++|..-        ....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~-c~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRN-CDWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcc-cceEecC---CEEEEcCCCccccCCCcccccHHHHHH
Confidence            479999999999999876 2222111      1111221222 2233333   356889999321        1123444


Q ss_pred             cc---------cCccEEEEEEECCCh-----h----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           72 YY---------RGAHGIIIVYDVTDQ-----E----SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        72 ~~---------~~~d~~i~v~d~~~~-----~----s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ++         +..|++|+++|+.+-     +    ....+...+.++....+...||+++++|+|+..
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence            43         458999999998652     1    123555666777777777899999999999864

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>TIGR00092 GTP-binding protein YchF

Probab=98.75  E-value=9.2e-08  Score=74.34  Aligned_cols=84  Identities=15%  Similarity=0.022  Sum_probs=57.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccc--
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQER--   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~--   64 (198)
                      .+++.|+|.|++|||||++.|.+... .....|..+.+.....+.++..               ...+.+.|.||...  
T Consensus         2 ~lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gA   81 (368)
T TIGR00092         2 GLSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGA   81 (368)
T ss_pred             CceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccch
Confidence            47899999999999999999998665 4333344434444444444331               13578999999432  


Q ss_pred             -----ccccccccccCccEEEEEEECC
Q 043946           65 -----FRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        65 -----~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                           ........++++|+++.|++..
T Consensus        82 s~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        82 SKGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             hcccCcchHHHHHHHhCCEEEEEEeCC
Confidence                 2233445678899999999984

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.74  E-value=4.5e-08  Score=74.48  Aligned_cols=57  Identities=26%  Similarity=0.334  Sum_probs=40.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      .++++++|.||||||||+|+|.+...... ....+.+.....+..+.   .+.++||||.-
T Consensus       121 ~~~~~~~G~pnvGKSsliN~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        121 AIRAMIIGIPNVGKSTLINRLAGKKIAKT-GNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcccc-CCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            47899999999999999999998654221 22233344444555543   47899999963

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.73  E-value=4.1e-08  Score=74.31  Aligned_cols=56  Identities=25%  Similarity=0.333  Sum_probs=39.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      .++++++|.||+|||||+|+|.+...... ....+.+.....+..+.   .+.++||||.
T Consensus       118 ~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       118 PIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            47899999999999999999997653222 12223344445555543   4789999996

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>cd01859 MJ1464 MJ1464

Probab=98.73  E-value=4.9e-08  Score=67.61  Aligned_cols=55  Identities=24%  Similarity=0.230  Sum_probs=38.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      ..+++++|.+++|||||+|+|.+.... ...++.+.+.....+..+.   .+.+|||||
T Consensus       101 ~~~~~~ig~~~~Gkssl~~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         101 EGKVGVVGYPNVGKSSIINALKGRHSA-STSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            568999999999999999999965432 2334444443333333333   589999998

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.73  E-value=6.7e-08  Score=73.17  Aligned_cols=119  Identities=24%  Similarity=0.176  Sum_probs=75.6

Q ss_pred             cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEec
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                      .....+..+|++++|+|+.++.+... ......+     .+.|+++|+||+|+.+...  .+...+.....+..++.+|+
T Consensus        14 ~~~~~l~~aDvVl~V~Dar~p~~~~~-~~i~~~l-----~~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~iSa   85 (276)
T TIGR03596        14 EIKEKLKLVDVVIEVLDARIPLSSRN-PMIDEIR-----GNKPRLIVLNKADLADPAV--TKQWLKYFEEKGIKALAINA   85 (276)
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCCCC-hhHHHHH-----CCCCEEEEEEccccCCHHH--HHHHHHHHHHcCCeEEEEEC
Confidence            35567889999999999987643211 1111112     2579999999999853211  12222223334567899999


Q ss_pred             cCCCCHHHHHHHHHHHHHHhhhcC-cCCCCCCCCccccCCCCCCCCCC
Q 043946          148 KDSLNVEQAFMAMTADIKNRMASQ-PAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +++.|++++++.|.+.+.+..... ..........+-.-+.++.+||+
T Consensus        86 ~~~~gi~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~vG~~nvGKSs  133 (276)
T TIGR03596        86 KKGKGVKKIIKAAKKLLKEKNEKLKAKGLKNRPIRAMIVGIPNVGKST  133 (276)
T ss_pred             CCcccHHHHHHHHHHHHHHhhhhhhhccCCCCCeEEEEECCCCCCHHH
Confidence            999999999999888775533211 11112234556677888888876

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=2.5e-07  Score=70.14  Aligned_cols=166  Identities=17%  Similarity=0.193  Sum_probs=98.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc---C-------------CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD---D-------------SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~---~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      ..+|.-+|....|||||-.++..   .             +.+++...  +++++...++++-.....-=.|+||+.+|-
T Consensus        54 HvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaR--GITIn~aHveYeTa~RhYaH~DCPGHADYI  131 (449)
T KOG0460|consen   54 HVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKAR--GITINAAHVEYETAKRHYAHTDCPGHADYI  131 (449)
T ss_pred             cccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhc--cceEeeeeeeeeccccccccCCCCchHHHH
Confidence            35788899999999999777631   1             11223233  344444444444333445556999999987


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-C--HHHHHHHHHHhC----
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-S--YETAKAFADEIG----  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~--~~~~~~~~~~~~----  139 (198)
                      ..-..--.+.|+.|+|+.++|...-+. .+.+-..+. .+. ..+++++||.|+.++.+. .  .-+++++...++    
T Consensus       132 KNMItGaaqMDGaILVVaatDG~MPQT-rEHlLLArQ-VGV-~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd  208 (449)
T KOG0460|consen  132 KNMITGAAQMDGAILVVAATDGPMPQT-REHLLLARQ-VGV-KHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGD  208 (449)
T ss_pred             HHhhcCccccCceEEEEEcCCCCCcch-HHHHHHHHH-cCC-ceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCC
Confidence            766667788999999999999543222 222222222 222 457778899999854322 1  234556677776    


Q ss_pred             -CcEEEEec---cCCCCHH---HHHHHHHHHHHHhhhcCcC
Q 043946          140 -IPFMETSA---KDSLNVE---QAFMAMTADIKNRMASQPA  173 (198)
Q Consensus       140 -~~~~~~S~---~~~~~i~---~~~~~l~~~~~~~~~~~~~  173 (198)
                       +|++.-||   +.|.+-+   +....|++.+-++.+.+..
T Consensus       209 ~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~P~R  249 (449)
T KOG0460|consen  209 NTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPTPER  249 (449)
T ss_pred             CCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCCccc
Confidence             47777665   4553322   3344555555554444333

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=3.1e-08  Score=81.64  Aligned_cols=112  Identities=20%  Similarity=0.204  Sum_probs=75.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC--C--------------CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY--L--------------DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~--~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .=+|+++.+...|||||+..|+...-  .              .+...+++....  .+..-.+++.+.++|+||+-+|.
T Consensus         9 irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss--~is~~~~~~~~nlidspghvdf~   86 (887)
T KOG0467|consen    9 IRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSS--AISLLHKDYLINLIDSPGHVDFS   86 (887)
T ss_pred             eeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeecc--ccccccCceEEEEecCCCccchh
Confidence            34789999999999999999974321  1              111112222222  22232345889999999999999


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL  120 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~  120 (198)
                      ........-+|++++++|+...-...    .+..++..-..+..+++|+||+|.
T Consensus        87 sevssas~l~d~alvlvdvvegv~~q----t~~vlrq~~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   87 SEVSSASRLSDGALVLVDVVEGVCSQ----TYAVLRQAWIEGLKPILVINKIDR  136 (887)
T ss_pred             hhhhhhhhhcCCcEEEEeeccccchh----HHHHHHHHHHccCceEEEEehhhh
Confidence            99999999999999999998754422    222222221235678899999994

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.70  E-value=3.9e-08  Score=66.96  Aligned_cols=76  Identities=14%  Similarity=0.193  Sum_probs=51.4

Q ss_pred             ccccCccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc
Q 043946           71 SYYRGAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK  148 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  148 (198)
                      ..+..+|++++|+|+.++.+..  .+..++.   ... .++|+++|+||+|+.+...  .....+..+..+..++.+|+.
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~---~~~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVK---EVD-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHH---hcc-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEec
Confidence            4567899999999998875432  3333332   221 3689999999999854321  223444555666789999999


Q ss_pred             CCCC
Q 043946          149 DSLN  152 (198)
Q Consensus       149 ~~~~  152 (198)
                      ++.+
T Consensus        81 ~~~~   84 (141)
T cd01857          81 KENA   84 (141)
T ss_pred             CCCc
Confidence            8764

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.70  E-value=1.9e-08  Score=69.28  Aligned_cols=59  Identities=24%  Similarity=0.217  Sum_probs=34.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++++|++|||||||+|.|.....      .........++.....+.++..   ..++||||...+.
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g---~~iIDTPGf~~~~  101 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDG---GYIIDTPGFRSFG  101 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTS---EEEECSHHHHT--
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCC---cEEEECCCCCccc
Confidence            478999999999999999987532      1122223333444455666442   4778999976553

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.69  E-value=4.3e-08  Score=75.62  Aligned_cols=57  Identities=23%  Similarity=0.288  Sum_probs=43.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      .++++|+|.||||||||||+|.+.... ...+..+.+.....+.....   +.++||||.-
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGii  188 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDDG---IYLLDTPGII  188 (322)
T ss_pred             ceEEEEEcCCCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCCC---eEEecCCCcC
Confidence            478999999999999999999986652 22233356666677766653   8899999953

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.67  E-value=1.2e-07  Score=72.25  Aligned_cols=119  Identities=24%  Similarity=0.239  Sum_probs=77.0

Q ss_pred             cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEec
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                      .....+..+|++++|+|+.++.+...  .++...   .. +.|+++|+||+|+.+...  .+...++....+.+++.+|+
T Consensus        17 ~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~---~~-~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa   88 (287)
T PRK09563         17 EIKENLKLVDVVIEVLDARIPLSSEN--PMIDKI---IG-NKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINA   88 (287)
T ss_pred             HHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHH---hC-CCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEEC
Confidence            35567889999999999977643211  111111   12 579999999999853211  12222233344567899999


Q ss_pred             cCCCCHHHHHHHHHHHHHHhhhc-CcCCCCCCCCccccCCCCCCCCCC
Q 043946          148 KDSLNVEQAFMAMTADIKNRMAS-QPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +++.|++++++.|.+.+.+.... ...........+-+-+.++.+||+
T Consensus        89 ~~~~gi~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~G~pnvGKSs  136 (287)
T PRK09563         89 KKGQGVKKILKAAKKLLKEKNERRKAKGMRPRAIRAMIIGIPNVGKST  136 (287)
T ss_pred             CCcccHHHHHHHHHHHHHHHHhhhhhcccCcCceEEEEECCCCCCHHH
Confidence            99999999999988877554321 111112344567788888888876

>PRK13796 GTPase YqeH; Provisional

Probab=98.66  E-value=1.7e-07  Score=73.66  Aligned_cols=111  Identities=24%  Similarity=0.329  Sum_probs=71.2

Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH----HHHHhC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA----FADEIG  139 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~----~~~~~~  139 (198)
                      .+...........+.+++|+|+.|..     ..|...+.+... +.|+++|+||+|+... ....+.+..    +++..+
T Consensus        58 ~~~~~l~~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~g  130 (365)
T PRK13796         58 DFLKLLNGIGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-NNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKELG  130 (365)
T ss_pred             HHHHHHHhhcccCcEEEEEEECccCC-----CchhHHHHHHhC-CCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhcC
Confidence            34333333333344999999998743     224444544433 5799999999999643 223333333    355556


Q ss_pred             C---cEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          140 I---PFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       140 ~---~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +   .++.+||+++.|++++++.|.+...             ...+...+.++.+||+
T Consensus       131 ~~~~~v~~vSAk~g~gI~eL~~~I~~~~~-------------~~~v~vvG~~NvGKST  175 (365)
T PRK13796        131 LRPVDVVLISAQKGHGIDELLEAIEKYRE-------------GRDVYVVGVTNVGKST  175 (365)
T ss_pred             CCcCcEEEEECCCCCCHHHHHHHHHHhcC-------------CCeEEEEcCCCCcHHH
Confidence            5   5899999999999999999866421             1245667777777765

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.62  E-value=1.4e-08  Score=78.65  Aligned_cols=129  Identities=18%  Similarity=0.218  Sum_probs=90.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC--------CCCC----------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD--------SYLD----------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~--------~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|.|+..-.+||||.-.|++.-        ....          +...  +.+.....+.++.+.+++.++||||+-+|.
T Consensus        39 nigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erer--gitiqsaav~fdwkg~rinlidtpghvdf~  116 (753)
T KOG0464|consen   39 NIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERER--GITIQSAAVNFDWKGHRINLIDTPGHVDFR  116 (753)
T ss_pred             cceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhc--CceeeeeeeecccccceEeeecCCCcceEE
Confidence            6889999999999999987531        1111          1122  333444444444455899999999999999


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP  141 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~  141 (198)
                      ....+.++..|+++.|+|++-.-..+.+..|.+    ....++|-+.++||+|.....  -...++...+++++.
T Consensus       117 leverclrvldgavav~dasagve~qtltvwrq----adk~~ip~~~finkmdk~~an--fe~avdsi~ekl~ak  185 (753)
T KOG0464|consen  117 LEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQ----ADKFKIPAHCFINKMDKLAAN--FENAVDSIEEKLGAK  185 (753)
T ss_pred             EEHHHHHHHhcCeEEEEeccCCcccceeeeehh----ccccCCchhhhhhhhhhhhhh--hhhHHHHHHHHhCCc
Confidence            889999999999999999987655445555543    223478999999999975432  123455666677763

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.61  E-value=4.5e-07  Score=69.64  Aligned_cols=154  Identities=19%  Similarity=0.237  Sum_probs=89.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCc----------------ccc-------eeeeEEEEEEE----------CC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYI----------------STI-------GVDFKIRTVEQ----------DG   49 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~----------------~~~-------~~~~~~~~~~~----------~~   49 (198)
                      .+|++|+|-..+|||||+-.|..+..+....                .+.       +.+..-..+.+          +.
T Consensus       167 evRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~  246 (591)
T KOG1143|consen  167 EVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEK  246 (591)
T ss_pred             EEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHhh
Confidence            4799999999999999998776443322111                010       11111111111          11


Q ss_pred             eEEEEEEEeCCCccccccccccccc--CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-
Q 043946           50 KTVKLQIWDTAGQERFRTITSSYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-  126 (198)
Q Consensus        50 ~~~~~~i~D~~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-  126 (198)
                      ...-++++|.+|+..|..-....+.  -.|..++|+++...-.. ...+.+..+..   -++|+.++++|+|+.....+ 
T Consensus       247 SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~-tTrEHLgl~~A---L~iPfFvlvtK~Dl~~~~~~~  322 (591)
T KOG1143|consen  247 SSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITW-TTREHLGLIAA---LNIPFFVLVTKMDLVDRQGLK  322 (591)
T ss_pred             hcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcc-ccHHHHHHHHH---hCCCeEEEEEeeccccchhHH
Confidence            2234789999999888654443332  35788899988764332 22333333322   27999999999999754211 


Q ss_pred             -----------------------CHHHHHHHHHHhC----CcEEEEeccCCCCHHHHHHHH
Q 043946          127 -----------------------SYETAKAFADEIG----IPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus       127 -----------------------~~~~~~~~~~~~~----~~~~~~S~~~~~~i~~~~~~l  160 (198)
                                             ...++-..++...    .|++-+|+.+|+|++-+-..|
T Consensus       323 ~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fL  383 (591)
T KOG1143|consen  323 KTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFL  383 (591)
T ss_pred             HHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHH
Confidence                                   1111112222221    478999999999987654443

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.59  E-value=1.7e-07  Score=64.87  Aligned_cols=54  Identities=22%  Similarity=0.273  Sum_probs=36.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      ..+++++|.+|+|||||+|.|.+... .....+..+  .....+..+   ..+.++||||
T Consensus       100 ~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t--~~~~~~~~~---~~~~liDtPG  154 (155)
T cd01849         100 SITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTT--TSQQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             CcEEEEEccCCCCHHHHHHHHHccccccccCCCCcc--cceEEEEec---CCEEEEECCC
Confidence            46799999999999999999997543 222223322  333334343   2588999998

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.59  E-value=1.4e-07  Score=73.40  Aligned_cols=58  Identities=21%  Similarity=0.221  Sum_probs=37.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCC------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLD------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      ++|+|.+|||||||||+|++.....      ....+-.++.....+.+++.   ..++||||...+.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~~  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREFG  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCccc
Confidence            6899999999999999998653221      11122223444555556532   2488999976654

>cd01855 YqeH YqeH

Probab=98.57  E-value=7.4e-08  Score=68.93  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .+++++|.+|+|||||+|+|.+..
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhc
Confidence            579999999999999999998743

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.55  E-value=2.1e-06  Score=62.99  Aligned_cols=85  Identities=16%  Similarity=0.040  Sum_probs=52.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--CCCCCCcccceeeeEEEEEEEC---CeEEEEEEEeCCCcccccc------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTVEQD---GKTVKLQIWDTAGQERFRT------ITSS   71 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~i~D~~g~~~~~~------~~~~   71 (198)
                      ..-|.|+|++++|||+|+|+|.+.  .+..... ...++.........   +....+.++||+|..+...      ....
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~-~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~   85 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDT-SQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLF   85 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCC-CCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHH
Confidence            456899999999999999999987  4432211 11222222222221   1246899999999654322      1222


Q ss_pred             cccC--ccEEEEEEECCCh
Q 043946           72 YYRG--AHGIIIVYDVTDQ   88 (198)
Q Consensus        72 ~~~~--~d~~i~v~d~~~~   88 (198)
                      .+..  ++.+|+..+....
T Consensus        86 ~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          86 ALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHhCEEEEeccCccc
Confidence            3333  7899988887653

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.52  E-value=8e-07  Score=71.71  Aligned_cols=134  Identities=19%  Similarity=0.211  Sum_probs=76.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ++=++|+|+||+||||||+.|+.+-. ......+   ....++ +.+...+++++++|.+  ...+ .-...-+|+|+++
T Consensus        69 PfIvavvGPpGtGKsTLirSlVrr~t-k~ti~~i---~GPiTv-vsgK~RRiTflEcp~D--l~~m-iDvaKIaDLVlLl  140 (1077)
T COG5192          69 PFIVAVVGPPGTGKSTLIRSLVRRFT-KQTIDEI---RGPITV-VSGKTRRITFLECPSD--LHQM-IDVAKIADLVLLL  140 (1077)
T ss_pred             CeEEEeecCCCCChhHHHHHHHHHHH-Hhhhhcc---CCceEE-eecceeEEEEEeChHH--HHHH-HhHHHhhheeEEE
Confidence            34577999999999999999975311 0111111   111222 3455578999999943  2211 1223447999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcCCHHHHHH------HHHH-hCCcEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVVSYETAKA------FADE-IGIPFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~~~~~~~~------~~~~-~~~~~~~~S~~~  149 (198)
                      +|.+-.-.+.. .++++.+..+   +.| ++-|++..|+...... ...+++      |-.- .|+.+|..|...
T Consensus       141 IdgnfGfEMET-mEFLnil~~H---GmPrvlgV~ThlDlfk~~st-Lr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         141 IDGNFGFEMET-MEFLNILISH---GMPRVLGVVTHLDLFKNPST-LRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             eccccCceehH-HHHHHHHhhc---CCCceEEEEeecccccChHH-HHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            99876533332 2344444443   555 5667899999754321 222222      2122 257888887654

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.51  E-value=3.2e-08  Score=73.81  Aligned_cols=115  Identities=13%  Similarity=0.172  Sum_probs=71.1

Q ss_pred             EEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHH
Q 043946           53 KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYET  130 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~  130 (198)
                      .+.+.|+||++-...-..+-..-.|++++++..+..-+-....+.+..+.-+..  .+++++-||+|+..+.+.  ..++
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~L--khiiilQNKiDli~e~~A~eq~e~  203 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKL--KHIIILQNKIDLIKESQALEQHEQ  203 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhh--ceEEEEechhhhhhHHHHHHHHHH
Confidence            367899999875533222233345888888877642111111222323333322  578899999999765422  1233


Q ss_pred             HHHHHHHh---CCcEEEEeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          131 AKAFADEI---GIPFMETSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       131 ~~~~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      +..|.+..   +++++++||--+.|++-+.++|.+.+.....
T Consensus       204 I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPvR  245 (466)
T KOG0466|consen  204 IQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPVR  245 (466)
T ss_pred             HHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCcc
Confidence            44444332   4699999999999999999999887754333

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.51  E-value=7.3e-06  Score=55.95  Aligned_cols=147  Identities=20%  Similarity=0.263  Sum_probs=81.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCC-Ccccc---------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA-GQERF---------------   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-g~~~~---------------   65 (198)
                      ..+||.|-|+|||||||++.++...-....+ ..  ..+...++.-++...-+.+.|+. |...+               
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~-kv--gGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~   80 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGY-KV--GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCc-ee--eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            4689999999999999999988742211111 11  12445566677777778888887 32111               


Q ss_pred             ----------cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH
Q 043946           66 ----------RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFA  135 (198)
Q Consensus        66 ----------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~  135 (198)
                                .......+..+|++|+  |=--+-. .....+...+......+.|++.++.+.+.. +   -.++++   
T Consensus        81 V~v~~le~i~~~al~rA~~~aDvIII--DEIGpME-lks~~f~~~ve~vl~~~kpliatlHrrsr~-P---~v~~ik---  150 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADVIII--DEIGPME-LKSKKFREAVEEVLKSGKPLIATLHRRSRH-P---LVQRIK---  150 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCEEEE--ecccchh-hccHHHHHHHHHHhcCCCcEEEEEecccCC-h---HHHHhh---
Confidence                      0111223344676654  3221111 111345566666666788999888877641 1   122222   


Q ss_pred             HHhCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          136 DEIGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       136 ~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                       ..+--+..   .+..|=+.++..+...+.
T Consensus       151 -~~~~v~v~---lt~~NR~~i~~~Il~~L~  176 (179)
T COG1618         151 -KLGGVYVF---LTPENRNRILNEILSVLK  176 (179)
T ss_pred             -hcCCEEEE---EccchhhHHHHHHHHHhc
Confidence             22322332   555555577777776654

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.50  E-value=2.9e-07  Score=68.47  Aligned_cols=57  Identities=25%  Similarity=0.236  Sum_probs=36.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      .++++|++|||||||+|+|.+.....      ....+..++.....+...+    ..++||||...+
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~----~~liDtPG~~~~  184 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG----GLIADTPGFNEF  184 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC----cEEEeCCCcccc
Confidence            57899999999999999998643211      1111222344444455543    268899997554

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK12289 GTPase RsgA; Reviewed

Probab=98.46  E-value=4e-07  Score=70.91  Aligned_cols=57  Identities=26%  Similarity=0.233  Sum_probs=36.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCC------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLD------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ++|+|++|||||||||+|.......      ....+-.++.....+..++.   ..++||||...+
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g---~~liDTPG~~~~  237 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNG---GLLADTPGFNQP  237 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCC---cEEEeCCCcccc
Confidence            7999999999999999998643221      11111223444455556433   268899996443

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.42  E-value=4.9e-07  Score=67.99  Aligned_cols=58  Identities=24%  Similarity=0.268  Sum_probs=40.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC------CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            6 LLLIGDSGVGKSCLLLRFADD------SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .+++|++|||||||+|+|...      ...+....+-.++.....+.++++   -.+.||||..++.
T Consensus       167 svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~g---G~iiDTPGf~~~~  230 (301)
T COG1162         167 TVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGG---GWIIDTPGFRSLG  230 (301)
T ss_pred             EEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCC---CEEEeCCCCCccC
Confidence            579999999999999999753      233333344455666677777532   3677999976654

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.42  E-value=6.9e-06  Score=66.21  Aligned_cols=134  Identities=17%  Similarity=0.264  Sum_probs=83.3

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc----------------------------------------------
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS----------------------------------------------   34 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~----------------------------------------------   34 (198)
                      |+..||+|+|...+||||.+..+...++.+....                                              
T Consensus       306 DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~E~  385 (980)
T KOG0447|consen  306 DHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIEL  385 (980)
T ss_pred             ccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHHHH
Confidence            4678999999999999999988754332211000                                              


Q ss_pred             --------cceeeeEEEEEEECCeE-EEEEEEeCCCcc-------------cccccccccccCccEEEEEEECCChhhHH
Q 043946           35 --------TIGVDFKIRTVEQDGKT-VKLQIWDTAGQE-------------RFRTITSSYYRGAHGIIIVYDVTDQESFN   92 (198)
Q Consensus        35 --------~~~~~~~~~~~~~~~~~-~~~~i~D~~g~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   92 (198)
                              +-++...+..+.+.|.. -++.++|.||.-             ....+.++++.+.+++|+++--..   .+
T Consensus       386 RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGS---VD  462 (980)
T KOG0447|consen  386 RMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGS---VD  462 (980)
T ss_pred             HHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCC---cc
Confidence                    00111122223333322 357899999932             234567889999999999974322   11


Q ss_pred             HHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH
Q 043946           93 NVKQ-WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE  137 (198)
Q Consensus        93 ~~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~  137 (198)
                      .-.. .-..+...-+.+...|+|++|.|+.+..-.++..++++..-
T Consensus       463 AERSnVTDLVsq~DP~GrRTIfVLTKVDlAEknlA~PdRI~kIleG  508 (980)
T KOG0447|consen  463 AERSIVTDLVSQMDPHGRRTIFVLTKVDLAEKNVASPSRIQQIIEG  508 (980)
T ss_pred             hhhhhHHHHHHhcCCCCCeeEEEEeecchhhhccCCHHHHHHHHhc
Confidence            1111 22233444456788999999999988766677777776553

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.42  E-value=2.1e-06  Score=66.14  Aligned_cols=95  Identities=22%  Similarity=0.205  Sum_probs=57.4

Q ss_pred             EEEEEEeCCCccccccc----ccc--------cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTI----TSS--------YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~--------~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++||||.......    ...        .-...+..++|+|++....  .+.+ ...+....   .+.-+|+||.|
T Consensus       197 ~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~--~~~~-a~~f~~~~---~~~giIlTKlD  270 (318)
T PRK10416        197 IDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQN--ALSQ-AKAFHEAV---GLTGIILTKLD  270 (318)
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChH--HHHH-HHHHHhhC---CCCEEEEECCC
Confidence            56899999996432211    111        1134678999999986432  2222 12222211   24577899999


Q ss_pred             CCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946          120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      ...    ....+.......++|+..++  +|++++++-.
T Consensus       271 ~t~----~~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        271 GTA----KGGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CCC----CccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            532    23455566677799988888  7888876643

>PRK01889 GTPase RsgA; Reviewed

Probab=98.42  E-value=1.5e-06  Score=68.16  Aligned_cols=83  Identities=16%  Similarity=0.237  Sum_probs=56.6

Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-HhCCcEEEEeccCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-EIGIPFMETSAKDSL  151 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~  151 (198)
                      ..++|.+++|+++..+-....+..++..+..   .++|.++|+||+|+.+..   .+....+.. ..+.+++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLCEDA---EEKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcEEEEECCCCc
Confidence            5778999999999643333344455444433   367889999999996431   112222222 346789999999999


Q ss_pred             CHHHHHHHHH
Q 043946          152 NVEQAFMAMT  161 (198)
Q Consensus       152 ~i~~~~~~l~  161 (198)
                      |++++..+|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999998874

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.41  E-value=7.5e-07  Score=72.17  Aligned_cols=114  Identities=18%  Similarity=0.173  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC-----CCCC-------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD-----SYLD-------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~-----~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|.+...-.+||||+-++.+.-     ++.+             .....++.......+.+.  .+++.++||||+-+|.
T Consensus        41 NIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~--~~~iNiIDTPGHvDFT  118 (721)
T KOG0465|consen   41 NIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWR--DYRINIIDTPGHVDFT  118 (721)
T ss_pred             ccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeec--cceeEEecCCCceeEE
Confidence            5677888899999999887531     1110             111223333344444455  5899999999999998


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      -...+.++..|++|+|+|+...-.-+....|.+ +   ..-++|.+.++||+|.....
T Consensus       119 ~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ-~---~ry~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  119 FEVERALRVLDGAVLVLDAVAGVESQTETVWRQ-M---KRYNVPRICFINKMDRMGAS  172 (721)
T ss_pred             EEehhhhhhccCeEEEEEcccceehhhHHHHHH-H---HhcCCCeEEEEehhhhcCCC
Confidence            888899999999999999887544333344433 2   23379999999999986543

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.40  E-value=2.3e-06  Score=65.97  Aligned_cols=153  Identities=16%  Similarity=0.158  Sum_probs=84.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC------------------CCcccceeeeEEEE------------------EE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD------------------SYISTIGVDFKIRT------------------VE   46 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~------------------~~~~~~~~~~~~~~------------------~~   46 (198)
                      ..||+|+|...+|||||+-.|.......                  ...+..+.++--..                  +.
T Consensus       133 E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWvk  212 (641)
T KOG0463|consen  133 EARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWVK  212 (641)
T ss_pred             eEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCccccee
Confidence            4799999999999999986664332211                  11111111111000                  00


Q ss_pred             -ECCeEEEEEEEeCCCcccccc--cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           47 -QDGKTVKLQIWDTAGQERFRT--ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        47 -~~~~~~~~~i~D~~g~~~~~~--~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                       .+....-++++|.+|++.|..  ...+.-...|..++++-++-.- +....+.+....   .-.+|+++|++|+|+-..
T Consensus       213 Ice~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLAL---aL~VPVfvVVTKIDMCPA  288 (641)
T KOG0463|consen  213 ICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLAL---ALHVPVFVVVTKIDMCPA  288 (641)
T ss_pred             eccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhh---hhcCcEEEEEEeeccCcH
Confidence             111223478999999998853  3333445568888888765421 111122222221   226899999999998543


Q ss_pred             CcC--CHHHHHHHHHHh--------------------------CCcEEEEeccCCCCHHHHHHH
Q 043946          124 KVV--SYETAKAFADEI--------------------------GIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus       124 ~~~--~~~~~~~~~~~~--------------------------~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      ...  ....+.++.+..                          -+++|.+|-.+|.|++-+...
T Consensus       289 NiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF  352 (641)
T KOG0463|consen  289 NILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF  352 (641)
T ss_pred             HHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH
Confidence            211  111222222221                          157889999999998755443

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=98.39  E-value=8.4e-07  Score=68.69  Aligned_cols=153  Identities=17%  Similarity=0.129  Sum_probs=96.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC-------------------------------CCCCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD-------------------------------SYLDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .+++.++|...+||||+-..+...                               ...++....-+.+.....++.+.  
T Consensus        79 hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte~--  156 (501)
T KOG0459|consen   79 HVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETEN--  156 (501)
T ss_pred             CceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEecc--
Confidence            578999999999999986554211                               11112222233444445555555  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hHHHH--HHHHHHHHHhcCCCCcEEEEEeCCCCCCCC--
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SFNNV--KQWLNEIDRYASENVNKLLVGNKCDLTDKK--  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~--~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~--  124 (198)
                      ..+++.|+||+..|-.....-..++|+.++|+++...+   .|..=  ......+..... -.+.|+++||+|-+...  
T Consensus       157 ~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~g-v~~lVv~vNKMddPtvnWs  235 (501)
T KOG0459|consen  157 KRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAG-VKHLIVLINKMDDPTVNWS  235 (501)
T ss_pred             eeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhc-cceEEEEEEeccCCccCcc
Confidence            56889999999998877777788999999999885422   12111  112222333333 35789999999976421  


Q ss_pred             cCC----HHHHHHHHHHhC------CcEEEEeccCCCCHHHHHH
Q 043946          125 VVS----YETAKAFADEIG------IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       125 ~~~----~~~~~~~~~~~~------~~~~~~S~~~~~~i~~~~~  158 (198)
                      ...    .+.+..+....+      ..++++|..+|.++.+..+
T Consensus       236 ~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  236 NERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             hhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            111    223334444433      4589999999999887765

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.37  E-value=1.9e-06  Score=65.02  Aligned_cols=95  Identities=15%  Similarity=0.114  Sum_probs=57.3

Q ss_pred             EEEEEEeCCCccccccccc------------ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTITS------------SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~------------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++||||....+....            ..-...|.+++|+|++-...  .+.. ...+.+..   .+.-+++||.|
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~--~~~~-~~~f~~~~---~~~g~IlTKlD  228 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQN--ALEQ-AKVFNEAV---GLTGIILTKLD  228 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHH--HHHH-HHHHHhhC---CCCEEEEEccC
Confidence            6789999999654322211            11234899999999975432  2222 22222211   24577899999


Q ss_pred             CCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946          120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      ...    ....+.......+.|+..++  +|++++++-.
T Consensus       229 e~~----~~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       229 GTA----KGGIILSIAYELKLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             CCC----CccHHHHHHHHHCcCEEEEe--CCCChHhCcc
Confidence            743    23445556667788888777  7777766543

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK13796 GTPase YqeH; Provisional

Probab=98.37  E-value=6.7e-07  Score=70.29  Aligned_cols=56  Identities=21%  Similarity=0.287  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC----CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD----SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ++.|+|.+|||||||||+|.......    ...+..+++.....+.+++.   ..++||||..
T Consensus       162 ~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        162 DVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             eEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            68999999999999999998532111    11122234445555555442   4789999963

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.36  E-value=3e-06  Score=58.78  Aligned_cols=21  Identities=33%  Similarity=0.469  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++.|+.|+|||||++++...
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999998754

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.35  E-value=1.1e-06  Score=69.01  Aligned_cols=57  Identities=21%  Similarity=0.348  Sum_probs=36.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC----CCcccceeeeEEEEEEECCeEEEEEEEeCCCccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD----SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   64 (198)
                      ++.++|.+|||||||+|+|.......    ......+++.....+..++   .+.++||||...
T Consensus       156 ~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~---~~~l~DtPG~~~  216 (360)
T TIGR03597       156 DVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDD---GHSLYDTPGIIN  216 (360)
T ss_pred             eEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCC---CCEEEECCCCCC
Confidence            79999999999999999998643210    1112223334444555533   257899999643

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.34  E-value=6.1e-07  Score=71.34  Aligned_cols=57  Identities=21%  Similarity=0.225  Sum_probs=42.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      .+.|.++|.|||||||+||.|.+.+.. ....|.+-+-..+++.+..   .+.+.|+||.-
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkV-sVS~TPGkTKHFQTi~ls~---~v~LCDCPGLV  370 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKV-SVSSTPGKTKHFQTIFLSP---SVCLCDCPGLV  370 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCcee-eeecCCCCcceeEEEEcCC---CceecCCCCcc
Confidence            478999999999999999999986543 2334444445556665554   47888999953

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.31  E-value=2.7e-06  Score=74.70  Aligned_cols=111  Identities=23%  Similarity=0.262  Sum_probs=65.5

Q ss_pred             EEEcCCCCcHHHHHHHHhcC-CCCCCC----cccceeeeEEEEEEECCeEEEEEEEeCCCccc--------cccccccc-
Q 043946            7 LLIGDSGVGKSCLLLRFADD-SYLDSY----ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSY-   72 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~-   72 (198)
                      +|+|++|+||||++..-... .+.+..    ....+ +.. ....+..   .-.++||.|...        -...|..+ 
T Consensus       129 ~viG~pgsGKTtal~~sgl~Fpl~~~~~~~~~~~~g-T~~-cdwwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~fL  203 (1188)
T COG3523         129 MVIGPPGSGKTTALLNSGLQFPLAEQMGALGLAGPG-TRN-CDWWFTD---EAVLIDTAGRYITQDSADEVDRAEWLGFL  203 (1188)
T ss_pred             EEecCCCCCcchHHhcccccCcchhhhccccccCCC-Ccc-cCccccc---ceEEEcCCcceecccCcchhhHHHHHHHH
Confidence            79999999999998543211 111100    01111 111 2222332   467789998321        12233332 


Q ss_pred             --------ccCccEEEEEEECCC-----hh----hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           73 --------YRGAHGIIIVYDVTD-----QE----SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        73 --------~~~~d~~i~v~d~~~-----~~----s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                              .+-.|++|+.+|+.+     +.    ....+..-+.++........||++++||.|+..
T Consensus       204 ~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         204 GLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence                    356899999999865     11    123344456667776777899999999999864

>PRK13695 putative NTPase; Provisional

Probab=98.28  E-value=2.2e-05  Score=55.36  Aligned_cols=77  Identities=9%  Similarity=0.093  Sum_probs=42.4

Q ss_pred             cccCccEEEEEEE---CCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc
Q 043946           72 YYRGAHGIIIVYD---VTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK  148 (198)
Q Consensus        72 ~~~~~d~~i~v~d---~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  148 (198)
                      .+..+++  +++|   ..+..+    ..+.+.+......+.|++++.||...       ......+....+..++.+   
T Consensus        93 ~l~~~~~--lllDE~~~~e~~~----~~~~~~l~~~~~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~---  156 (174)
T PRK13695         93 ALEEADV--IIIDEIGKMELKS----PKFVKAVEEVLDSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL---  156 (174)
T ss_pred             ccCCCCE--EEEECCCcchhhh----HHHHHHHHHHHhCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE---
Confidence            3455666  5777   322211    22334444443446899999988532       223344444555666666   


Q ss_pred             CCCCHHHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTADI  164 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~  164 (198)
                      +.+|=+++.+.+.+.+
T Consensus       157 ~~~~r~~~~~~~~~~~  172 (174)
T PRK13695        157 TPENRDSLPFEILNRL  172 (174)
T ss_pred             cchhhhhHHHHHHHHH
Confidence            4555567777777654

>PRK14974 cell division protein FtsY; Provisional

Probab=98.28  E-value=1.6e-06  Score=67.11  Aligned_cols=96  Identities=16%  Similarity=0.075  Sum_probs=56.7

Q ss_pred             EEEEEEeCCCccccccc----cccc--ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSSY--YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.++||+|.......    ...+  ....|.+++|+|+...+...   .....+....   ..--+++||.|...   
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~---~~a~~f~~~~---~~~giIlTKlD~~~---  293 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAV---EQAREFNEAV---GIDGVILTKVDADA---  293 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHH---HHHHHHHhcC---CCCEEEEeeecCCC---
Confidence            45899999996532211    1111  23468899999997654221   1122222211   23467899999743   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946          126 VSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                       ..-.+...+...+.|+..++  +|++++++..+
T Consensus       294 -~~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~  324 (336)
T PRK14974        294 -KGGAALSIAYVIGKPILFLG--VGQGYDDLIPF  324 (336)
T ss_pred             -CccHHHHHHHHHCcCEEEEe--CCCChhhcccC
Confidence             23344455556788888877  78888776543

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.26  E-value=2.3e-06  Score=65.17  Aligned_cols=58  Identities=29%  Similarity=0.309  Sum_probs=37.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCC-c-----ccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSY-I-----STIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~-~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      .++++|++|||||||+|.|.+....... .     .+..++.....+...+.   ..++|+||...+
T Consensus       163 ~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         163 TSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            5899999999999999999874332211 1     11123344445555432   368899997654

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.25  E-value=2.6e-06  Score=65.25  Aligned_cols=58  Identities=34%  Similarity=0.367  Sum_probs=36.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCC-cc-----cceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSY-IS-----TIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      .++++|++|||||||+|.|.+....... .+     +..++.....+..++.   ..++|+||...+
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~~  229 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSSF  229 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCcc
Confidence            4789999999999999999865332211 11     1122333444444432   378899996543

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.22  E-value=9.7e-06  Score=60.11  Aligned_cols=60  Identities=23%  Similarity=0.489  Sum_probs=44.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC----cccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY----ISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      ..++|+-+|..|.|||||++.|.+..+....    .++.........+.-.+..+++++.||.|
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            4689999999999999999999987664332    23333333334444567778999999998

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.17  E-value=2.5e-05  Score=58.98  Aligned_cols=92  Identities=21%  Similarity=0.251  Sum_probs=64.6

Q ss_pred             cccccccCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      +...-..+.|-+++|+.+.+|+- ...+..++-....   .++..+|++||+|+.+......++.......++.+++.+|
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s  148 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVS  148 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEec
Confidence            33444556788888888888764 3344444433322   3567777899999986653332456667778899999999


Q ss_pred             ccCCCCHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTA  162 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~  162 (198)
                      ++++.+++++.+++..
T Consensus       149 ~~~~~~~~~l~~~l~~  164 (301)
T COG1162         149 AKNGDGLEELAELLAG  164 (301)
T ss_pred             CcCcccHHHHHHHhcC
Confidence            9999999999988743

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=98.16  E-value=5.3e-06  Score=66.20  Aligned_cols=128  Identities=20%  Similarity=0.215  Sum_probs=80.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCC------------C----CCccccee--eeEEEEEEE------------CCeEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYL------------D----SYISTIGV--DFKIRTVEQ------------DGKTVKL   54 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~------------~----~~~~~~~~--~~~~~~~~~------------~~~~~~~   54 (198)
                      ++.|+.....|||||-..|+...-.            .    +....++.  +.....++.            ++..+-+
T Consensus        21 NmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLi  100 (842)
T KOG0469|consen   21 NMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLI  100 (842)
T ss_pred             cceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeE
Confidence            5678899999999999999642110            0    00111111  111111111            2345789


Q ss_pred             EEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-CCcCCHHHHHH
Q 043946           55 QIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-KKVVSYETAKA  133 (198)
Q Consensus        55 ~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~-~~~~~~~~~~~  133 (198)
                      .++|.||+-+|.+.....++-.|+.+.|+|..+.-..+.-..+.+.+    ..++.-++++||+|..- +-+++.+++.+
T Consensus       101 NLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~----~ERIkPvlv~NK~DRAlLELq~~~EeLyq  176 (842)
T KOG0469|consen  101 NLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAI----AERIKPVLVMNKMDRALLELQLSQEELYQ  176 (842)
T ss_pred             EeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHH----HhhccceEEeehhhHHHHhhcCCHHHHHH
Confidence            99999999999999999999999999999988764433222222223    22445566899999642 34556666655


Q ss_pred             HHH
Q 043946          134 FAD  136 (198)
Q Consensus       134 ~~~  136 (198)
                      ..+
T Consensus       177 tf~  179 (842)
T KOG0469|consen  177 TFQ  179 (842)
T ss_pred             HHH
Confidence            444

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.14  E-value=3.5e-05  Score=61.47  Aligned_cols=83  Identities=16%  Similarity=0.035  Sum_probs=45.1

Q ss_pred             EEEEEEeCCCccccccc----ccc--cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSS--YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.|+||+|.......    ...  .....+-++||+|+.-.+...   .....+...   -.+.-+++||.|....  
T Consensus       183 ~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~---~~~~g~IlTKlD~~ar--  254 (429)
T TIGR01425       183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS---VDVGSVIITKLDGHAK--  254 (429)
T ss_pred             CCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc---cCCcEEEEECccCCCC--
Confidence            67899999995433211    111  123467899999987654322   122223221   2356788999997421  


Q ss_pred             CCHHHHHHHHHHhCCcEEE
Q 043946          126 VSYETAKAFADEIGIPFME  144 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~  144 (198)
                        .-.+.......+.|+..
T Consensus       255 --gG~aLs~~~~t~~PI~f  271 (429)
T TIGR01425       255 --GGGALSAVAATKSPIIF  271 (429)
T ss_pred             --ccHHhhhHHHHCCCeEE
Confidence              22233344445555443

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.08  E-value=3.8e-05  Score=60.25  Aligned_cols=138  Identities=15%  Similarity=0.136  Sum_probs=70.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC---CCCCcccceeeeE------------------EEEEEEC---------CeEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY---LDSYISTIGVDFK------------------IRTVEQD---------GKTVKL   54 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~---~~~~~~~~~~~~~------------------~~~~~~~---------~~~~~~   54 (198)
                      .++++|++||||||++.+|...-.   ........+.+..                  .....-.         -....+
T Consensus       139 ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~Dl  218 (374)
T PRK14722        139 VFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHM  218 (374)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCE
Confidence            578999999999999999874311   0000000111110                  0011000         012468


Q ss_pred             EEEeCCCccccccc---ccccc---cCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCCCCc
Q 043946           55 QIWDTAGQERFRTI---TSSYY---RGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASE--NVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        55 ~i~D~~g~~~~~~~---~~~~~---~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~--~~p~iiv~nK~D~~~~~~  125 (198)
                      .++||+|....+..   ....+   ....-.++|++++... .+..+...+......-..  .-+--++++|.|...   
T Consensus       219 VLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~---  295 (374)
T PRK14722        219 VLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEAS---  295 (374)
T ss_pred             EEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCC---
Confidence            89999996533221   11112   2334568899987643 333332222222110000  012356789999642   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEe
Q 043946          126 VSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S  146 (198)
                       ..-.+..+....+.++..++
T Consensus       296 -~~G~~l~~~~~~~lPi~yvt  315 (374)
T PRK14722        296 -NLGGVLDTVIRYKLPVHYVS  315 (374)
T ss_pred             -CccHHHHHHHHHCcCeEEEe
Confidence             45566667777787766554

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=98.07  E-value=4.4e-06  Score=59.46  Aligned_cols=71  Identities=20%  Similarity=0.200  Sum_probs=40.4

Q ss_pred             EEEEEeCCCccccccc---cccc---ccC---ccEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           53 KLQIWDTAGQERFRTI---TSSY---YRG---AHGIIIVYDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~---~~~~---~~~---~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ...++|+||+-+....   .+..   +.+   --++++++|..= -++.+.+...+..+..+..-.+|.|=|++|+|+..
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLlk  178 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLLK  178 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHhh
Confidence            3678999997543211   1111   111   235667766532 23334444455555555555789999999999864


Q ss_pred             C
Q 043946          123 K  123 (198)
Q Consensus       123 ~  123 (198)
                      .
T Consensus       179 ~  179 (273)
T KOG1534|consen  179 D  179 (273)
T ss_pred             h
Confidence            3

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=98.07  E-value=2.7e-05  Score=56.43  Aligned_cols=62  Identities=26%  Similarity=0.284  Sum_probs=39.9

Q ss_pred             EEEEeC-CCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           54 LQIWDT-AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        54 ~~i~D~-~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +.+.|| +|.+++.   ....+.+|.+|.|+|++.+ ++...........+. . =.++.+|+||.|..
T Consensus       136 ~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~~-sl~taeri~~L~~el-g-~k~i~~V~NKv~e~  198 (255)
T COG3640         136 VVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSYK-SLRTAERIKELAEEL-G-IKRIFVVLNKVDEE  198 (255)
T ss_pred             EEEEecccchhhhc---cccccCCCEEEEEeCCcHH-HHHHHHHHHHHHHHh-C-CceEEEEEeeccch
Confidence            556666 4554443   3456789999999999854 444444443333333 1 27999999999953

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.05  E-value=1.5e-05  Score=63.49  Aligned_cols=123  Identities=19%  Similarity=0.198  Sum_probs=77.9

Q ss_pred             eeEEEEEEE-CCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCCh----------hhHHHHHHHHHHH-HHhcC
Q 043946           39 DFKIRTVEQ-DGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEI-DRYAS  106 (198)
Q Consensus        39 ~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~-~~~~~  106 (198)
                      ......+.+ .+  ..+.++|++|+......|..++.+++++|||+++++-          ..+.+....+..+ ....-
T Consensus       224 Gi~e~~f~~~~~--~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~  301 (389)
T PF00503_consen  224 GITEIDFNFSGS--RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWF  301 (389)
T ss_dssp             SEEEEEEEE-TT--EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGG
T ss_pred             CeeEEEEEeecc--cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCccc
Confidence            344455556 55  7899999999998889999999999999999998641          1232223333222 22222


Q ss_pred             CCCcEEEEEeCCCCCCC-----C-----------c--CCHHHHHHHHHHh------------CCcEEEEeccCCCCHHHH
Q 043946          107 ENVNKLLVGNKCDLTDK-----K-----------V--VSYETAKAFADEI------------GIPFMETSAKDSLNVEQA  156 (198)
Q Consensus       107 ~~~p~iiv~nK~D~~~~-----~-----------~--~~~~~~~~~~~~~------------~~~~~~~S~~~~~~i~~~  156 (198)
                      .+.|+++++||.|+...     .           .  -..+.+..+....            .+.+..++|.+..++..+
T Consensus       302 ~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v  381 (389)
T PF00503_consen  302 KNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKV  381 (389)
T ss_dssp             TTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHH
T ss_pred             ccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHH
Confidence            47899999999997320     0           0  2234444433321            123457778888888888


Q ss_pred             HHHHHHH
Q 043946          157 FMAMTAD  163 (198)
Q Consensus       157 ~~~l~~~  163 (198)
                      |+.+.+.
T Consensus       382 ~~~v~~~  388 (389)
T PF00503_consen  382 FNAVKDI  388 (389)
T ss_dssp             HHHHHHH
T ss_pred             HHHhcCc
Confidence            8777654

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.05  E-value=0.00014  Score=53.35  Aligned_cols=157  Identities=25%  Similarity=0.306  Sum_probs=94.0

Q ss_pred             eeEEEEEcCCCC--cHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEE----EEEEEeCCCcccccccccccccCc
Q 043946            3 LFKLLLIGDSGV--GKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTV----KLQIWDTAGQERFRTITSSYYRGA   76 (198)
Q Consensus         3 ~~~i~v~G~~~~--GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~i~D~~g~~~~~~~~~~~~~~~   76 (198)
                      ...++|.|.+|+  ||.+|+.+|....+.....+...+++...+  ++.+.+    .+.+.-.-.  .+.--........
T Consensus         4 rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwt--id~kyysadi~lcishicd--e~~lpn~~~a~pl   79 (418)
T KOG4273|consen    4 RPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWT--IDNKYYSADINLCISHICD--EKFLPNAEIAEPL   79 (418)
T ss_pred             CceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceE--ecceeeecceeEEeecccc--hhccCCcccccce
Confidence            346799999999  999999999887776555554444443333  333322    233222211  1111122233445


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC---------------------------------
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK---------------------------------  123 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~---------------------------------  123 (198)
                      .+++.|||.+....+..++.|+.--.- ..- --.+.++||.|....                                 
T Consensus        80 ~a~vmvfdlse~s~l~alqdwl~htdi-nsf-dillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgiset  157 (418)
T KOG4273|consen   80 QAFVMVFDLSEKSGLDALQDWLPHTDI-NSF-DILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISET  157 (418)
T ss_pred             eeEEEEEeccchhhhHHHHhhcccccc-ccc-hhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcccccc
Confidence            788999999999889999998752111 110 123445688886410                                 


Q ss_pred             --------Cc---CCHHHHHHHHHHhCCcEEEEeccC------------CCCHHHHHHHHHHHHH
Q 043946          124 --------KV---VSYETAKAFADEIGIPFMETSAKD------------SLNVEQAFMAMTADIK  165 (198)
Q Consensus       124 --------~~---~~~~~~~~~~~~~~~~~~~~S~~~------------~~~i~~~~~~l~~~~~  165 (198)
                              ..   .......+++.++++.+++.++.+            ..|++.+|..|.-.+.
T Consensus       158 egssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmw  222 (418)
T KOG4273|consen  158 EGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMW  222 (418)
T ss_pred             ccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccC
Confidence                    00   011234567788889999888743            2478888888776554

>KOG2484 consensus GTPase [General function prediction only]

Probab=98.04  E-value=4.1e-06  Score=64.85  Aligned_cols=56  Identities=23%  Similarity=0.338  Sum_probs=42.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      -+++.|+|.|++||||+||+|..++.- ......+.+...+.+..+.   .+.|.|.||.
T Consensus       252 sIrvGViG~PNVGKSSvINsL~~~k~C-~vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  252 SIRVGIIGYPNVGKSSVINSLKRRKAC-NVGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             ceEeeeecCCCCChhHHHHHHHHhccc-cCCCCccchhhhhheeccC---CceeccCCce
Confidence            589999999999999999999976552 2334445556666666665   5889999994

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.03  E-value=3.2e-05  Score=54.41  Aligned_cols=83  Identities=14%  Similarity=0.090  Sum_probs=46.2

Q ss_pred             EEEEEEeCCCccccccc----cccc--ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSSY--YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+.++|++|.......    ...+  ....+.+++|+|+......   ..+...+....  + ..-+++||.|....  
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~---~~~~~~~~~~~--~-~~~viltk~D~~~~--  154 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDA---VNQAKAFNEAL--G-ITGVILTKLDGDAR--  154 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHH---HHHHHHHHhhC--C-CCEEEEECCcCCCC--
Confidence            45788999996432111    1111  1348999999998754332   22333332222  2 35677799997542  


Q ss_pred             CCHHHHHHHHHHhCCcEEE
Q 043946          126 VSYETAKAFADEIGIPFME  144 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~  144 (198)
                        ...+...+...++|+..
T Consensus       155 --~g~~~~~~~~~~~p~~~  171 (173)
T cd03115         155 --GGAALSIRAVTGKPIKF  171 (173)
T ss_pred             --cchhhhhHHHHCcCeEe
Confidence              22333366677776543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.96  E-value=2.5e-05  Score=54.67  Aligned_cols=135  Identities=18%  Similarity=0.284  Sum_probs=65.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeC-CCcc--------------------
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDT-AGQE--------------------   63 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~g~~--------------------   63 (198)
                      +|++-|++|+|||||+++++..-.. ...+..  -+....+..++...-+.+.|. .|.+                    
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~-~~~~v~--Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKK-KGLPVG--GFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH-TCGGEE--EEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc-cCCccc--eEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            6899999999999999998742110 111211  233344445555556666666 3311                    


Q ss_pred             --cccccccccc----cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC-CCCCCCcCCHHHHHHHHH
Q 043946           64 --RFRTITSSYY----RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKC-DLTDKKVVSYETAKAFAD  136 (198)
Q Consensus        64 --~~~~~~~~~~----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~-D~~~~~~~~~~~~~~~~~  136 (198)
                        .+...-...+    ..+|  ++|+|=--+-. .....|.+.+......+.|++.++.+. +.+        .++++..
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mE-l~~~~F~~~v~~~l~s~~~vi~vv~~~~~~~--------~l~~i~~  146 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKME-LKSPGFREAVEKLLDSNKPVIGVVHKRSDNP--------FLEEIKR  146 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTC-CC-CHHHHHHHHHHCTTSEEEEE--SS--SC--------CHHHHHT
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhh-hcCHHHHHHHHHHHcCCCcEEEEEecCCCcH--------HHHHHHh
Confidence              0111111112    3445  66666211100 011334555555555678999888776 421        2244555


Q ss_pred             HhCCcEEEEeccCCCCH
Q 043946          137 EIGIPFMETSAKDSLNV  153 (198)
Q Consensus       137 ~~~~~~~~~S~~~~~~i  153 (198)
                      ..++.+++++..+.+.+
T Consensus       147 ~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  147 RPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTSEEEE--TTTCCCH
T ss_pred             CCCcEEEEeChhHHhhH
Confidence            55678888877766544

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.96  E-value=1.7e-05  Score=56.17  Aligned_cols=81  Identities=22%  Similarity=0.248  Sum_probs=39.9

Q ss_pred             EEEEEEeCCCccccccc--c---cccccCccEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI--T---SSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~--~---~~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ....++++.|...-..+  .   ....-..+.+|.|+|+.+-.....+.. +..++   ..   -=++++||+|+.+.. 
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi---~~---ADvIvlnK~D~~~~~-  157 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQI---AF---ADVIVLNKIDLVSDE-  157 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHH---CT----SEEEEE-GGGHHHH-
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcc---hh---cCEEEEeccccCChh-
Confidence            45667777774433332  0   001234689999999966322222222 22222   11   227789999986543 


Q ss_pred             CCHHHHHHHHHHhC
Q 043946          126 VSYETAKAFADEIG  139 (198)
Q Consensus       126 ~~~~~~~~~~~~~~  139 (198)
                      ...+...+..+..+
T Consensus       158 ~~i~~~~~~ir~ln  171 (178)
T PF02492_consen  158 QKIERVREMIRELN  171 (178)
T ss_dssp             --HHHHHHHHHHH-
T ss_pred             hHHHHHHHHHHHHC
Confidence            12245555555443

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.95  E-value=8.1e-05  Score=51.06  Aligned_cols=57  Identities=16%  Similarity=0.187  Sum_probs=34.7

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++|++|...   ....++..+|-+++|..++-.+.+.- ... ..+      ..--++++||.|
T Consensus        92 ~D~iiIDtaG~~~---~~~~~~~~Ad~~ivv~tpe~~D~y~~-~k~-~~~------~~~~~~~~~k~~  148 (148)
T cd03114          92 FDVIIVETVGVGQ---SEVDIASMADTTVVVMAPGAGDDIQA-IKA-GIM------EIADIVVVNKAD  148 (148)
T ss_pred             CCEEEEECCccCh---hhhhHHHhCCEEEEEECCCchhHHHH-hhh-hHh------hhcCEEEEeCCC
Confidence            5688999988542   23348888999999988773332111 111 111      122378899987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.93  E-value=0.00015  Score=59.11  Aligned_cols=90  Identities=18%  Similarity=0.227  Sum_probs=49.2

Q ss_pred             EEEEEEeCCCcccccccccc---cc--cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           52 VKLQIWDTAGQERFRTITSS---YY--RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                      +.+.|+|++|....+.....   .+  ......++|++....  ...+...+..+..    ..+.-+|+||.|...    
T Consensus       429 ~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss--~~Dl~eii~~f~~----~~~~gvILTKlDEt~----  498 (559)
T PRK12727        429 YKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAH--FSDLDEVVRRFAH----AKPQGVVLTKLDETG----  498 (559)
T ss_pred             CCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCC--hhHHHHHHHHHHh----hCCeEEEEecCcCcc----
Confidence            67899999996433211100   01  012345677776642  2333333333322    246778999999632    


Q ss_pred             CHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          127 SYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ....+.......+.++..++  +|..+
T Consensus       499 ~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        499 RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence            34566667777787766554  34444

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.92  E-value=0.00013  Score=56.45  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -.+|.|.-|||||||+|+++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3578899999999999999853

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.92  E-value=0.00033  Score=54.14  Aligned_cols=74  Identities=19%  Similarity=0.261  Sum_probs=43.6

Q ss_pred             CccEEEEEEECCChhhHHH-HHH-HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccCC
Q 043946           75 GAHGIIIVYDVTDQESFNN-VKQ-WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKDS  150 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~-~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~~  150 (198)
                      ..|++|-|+|+..-..... ... ...++.      .-=+|++||.|+.++..  .+..+...++.+  ++++.++. .+
T Consensus       116 ~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia------~AD~ivlNK~Dlv~~~~--l~~l~~~l~~lnp~A~i~~~~~-~~  186 (323)
T COG0523         116 RLDGVVTVVDAAHFLEGLDAIAELAEDQLA------FADVIVLNKTDLVDAEE--LEALEARLRKLNPRARIIETSY-GD  186 (323)
T ss_pred             eeceEEEEEeHHHhhhhHHHHHHHHHHHHH------hCcEEEEecccCCCHHH--HHHHHHHHHHhCCCCeEEEccc-cC
Confidence            3588999999876433211 222 222231      12278999999987652  455666666665  57777776 33


Q ss_pred             CCHHHHH
Q 043946          151 LNVEQAF  157 (198)
Q Consensus       151 ~~i~~~~  157 (198)
                      ....+++
T Consensus       187 ~~~~~ll  193 (323)
T COG0523         187 VDLAELL  193 (323)
T ss_pred             CCHHHhh
Confidence            4444333

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.88  E-value=9.3e-05  Score=50.19  Aligned_cols=107  Identities=16%  Similarity=0.161  Sum_probs=61.0

Q ss_pred             EEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECC
Q 043946            7 LLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                      +.-|..|+|||++.-.+...-. .......-.+..   .......+.+.++|+|+..  .......+..+|.++++.+.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~-~~~~~~~~vd~D---~~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALA-KLGKRVLLLDAD---LGLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH-HCCCcEEEEECC---CCCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            3457889999999766642100 000011000000   0011111678999999753  333456788999999999887


Q ss_pred             ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           87 DQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      . .++..+...++.+.... ...++.+|+|+.+..
T Consensus        78 ~-~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          78 P-TSITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             h-hHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence            4 34444444444454332 345788999999853

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.87  E-value=7.6e-05  Score=47.84  Aligned_cols=82  Identities=16%  Similarity=0.177  Sum_probs=50.1

Q ss_pred             EEEEc-CCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            6 LLLIG-DSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         6 i~v~G-~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      |+|.| ..|+||||+...|...-.. ...+       ...+..+.. +.+.++|+|+.....  ....+..+|.++++++
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~-------vl~~d~d~~-~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKR-------VLLIDLDPQ-YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCc-------EEEEeCCCC-CCEEEEeCcCCCCHH--HHHHHHHCCEEEEecc
Confidence            56777 5589999998777532110 1111       111222222 668999999864332  3367788999999998


Q ss_pred             CCChhhHHHHHHHHH
Q 043946           85 VTDQESFNNVKQWLN   99 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~   99 (198)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            76 445555555554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.87  E-value=3.4e-05  Score=55.84  Aligned_cols=117  Identities=21%  Similarity=0.254  Sum_probs=73.5

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCCh----------hhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDL  120 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~  120 (198)
                      ..+.+.|.+|+.+-...|.+.+.++-.++|++.++.-          +.+.+-...+..+..+- -.+.++|+++||-|+
T Consensus       199 iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKkDl  278 (359)
T KOG0085|consen  199 IIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDL  278 (359)
T ss_pred             heeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechhhh
Confidence            4567889988888778888888888888877665431          11222222222222210 035789999999998


Q ss_pred             CCC----------------CcCCHHHHHHHHHHh----C-----C-cEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          121 TDK----------------KVVSYETAKAFADEI----G-----I-PFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       121 ~~~----------------~~~~~~~~~~~~~~~----~-----~-~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      .++                .....+.++++..+.    +     + .-..+.|.+..||.-+|..+.+.+.+..
T Consensus       279 LEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  279 LEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             hhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhh
Confidence            642                223344444444332    1     1 1246788899999999999988887643

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.85  E-value=3.4e-05  Score=58.10  Aligned_cols=58  Identities=16%  Similarity=0.253  Sum_probs=36.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC------CCCCcccceeeeEEEE-EEECCeEEEEEEEeCCCc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY------LDSYISTIGVDFKIRT-VEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~g~   62 (198)
                      ..+++.|+|-||+|||||||++.....      .....++.  +..... +.+... -.+.+.||||.
T Consensus       142 ~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGV--T~~V~~~iri~~r-p~vy~iDTPGi  206 (335)
T KOG2485|consen  142 SEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGV--TRRVSERIRISHR-PPVYLIDTPGI  206 (335)
T ss_pred             CceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCc--eeeehhheEeccC-CceEEecCCCc
Confidence            357899999999999999999853221      11222333  333333 333222 24788899993

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.85  E-value=0.0002  Score=51.47  Aligned_cols=84  Identities=18%  Similarity=0.152  Sum_probs=48.1

Q ss_pred             EEEEEEeCCCccccccc----ccccc--cCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTI----TSSYY--RGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      +.+.++||+|.......    ...++  ...+-+++|++++.... +..+..++    ...  + +--++++|.|...  
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~----~~~--~-~~~lIlTKlDet~--  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFY----EAF--G-IDGLILTKLDETA--  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHH----HHS--S-TCEEEEESTTSSS--
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHh----hcc--c-CceEEEEeecCCC--
Confidence            45899999995543211    11111  25678999999987543 22222222    221  1 2355799999632  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEe
Q 043946          125 VVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                        ..-.+..+....+.|+-.++
T Consensus       155 --~~G~~l~~~~~~~~Pi~~it  174 (196)
T PF00448_consen  155 --RLGALLSLAYESGLPISYIT  174 (196)
T ss_dssp             --TTHHHHHHHHHHTSEEEEEE
T ss_pred             --CcccceeHHHHhCCCeEEEE
Confidence              34566677778888766554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.84  E-value=8.8e-05  Score=59.15  Aligned_cols=89  Identities=10%  Similarity=0.045  Sum_probs=49.7

Q ss_pred             EEEEEEeCCCcccccc----cccccc--cCccEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRT----ITSSYY--RGAHGIIIVYDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~----~~~~~~--~~~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      ..+.++||+|......    ....+.  ....-.++|+|++. .+.+   .+....+..   . -.-=++++|.|...  
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~---~~~~~~f~~---~-~~~~~I~TKlDEt~--  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTL---DEVISAYQG---H-GIHGCIITKVDEAA--  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHH---HHHHHHhcC---C-CCCEEEEEeeeCCC--
Confidence            3578899999543211    111111  22346788899884 3333   333322221   1 23456789999642  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          125 VVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                        ..-.+..+....+.++..++  +|.++
T Consensus       341 --~~G~~l~~~~~~~lPi~yvt--~Gq~V  365 (420)
T PRK14721        341 --SLGIALDAVIRRKLVLHYVT--NGQKV  365 (420)
T ss_pred             --CccHHHHHHHHhCCCEEEEE--CCCCc
Confidence              45566677777788766554  45555

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.82  E-value=3.4e-05  Score=61.92  Aligned_cols=86  Identities=19%  Similarity=0.107  Sum_probs=48.8

Q ss_pred             EEEEEEeCCCcccccccc------cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTIT------SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+.|+||+|........      ...+...|.+++|+|++....   .......+....  + ..-+|+||.|...   
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~---av~~a~~F~~~l--~-i~gvIlTKlD~~a---  246 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQ---AKNQAKAFHEAV--G-IGGIIITKLDGTA---  246 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHH---HHHHHHHHHhcC--C-CCEEEEecccCCC---
Confidence            368999999965432111      112346789999999876532   122222232211  1 2356789999632   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEec
Q 043946          126 VSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                       ..-.+.......+.|+..++.
T Consensus       247 -~~G~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        247 -KGGGALSAVAETGAPIKFIGT  267 (437)
T ss_pred             -cccHHHHHHHHHCcCEEEEec
Confidence             234455566667777665543

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.80  E-value=4.2e-05  Score=53.80  Aligned_cols=44  Identities=30%  Similarity=0.209  Sum_probs=27.9

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      |++++|+|+.++.+.. -..+.+.+. ....+.|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~-~~~i~~~~~-l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCR-CPQVEEAVL-QAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCC-CHHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence            7899999998753211 112222221 2233689999999999954

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.79  E-value=0.00013  Score=40.93  Aligned_cols=45  Identities=27%  Similarity=0.294  Sum_probs=27.4

Q ss_pred             cCccEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           74 RGAHGIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      .-.++++|++|++..  .++..-...+..++.... +.|+++|+||+|
T Consensus        12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~-~~P~i~V~nK~D   58 (58)
T PF06858_consen   12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFP-NKPVIVVLNKID   58 (58)
T ss_dssp             GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTT-TS-EEEEE--TT
T ss_pred             hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcC-CCCEEEEEeccC
Confidence            346899999999864  344444556666666554 689999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.77  E-value=0.00023  Score=44.57  Aligned_cols=69  Identities=20%  Similarity=0.152  Sum_probs=44.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-ccccccCccEEEEEEE
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-TSSYYRGAHGIIIVYD   84 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-~~~~~~~~d~~i~v~d   84 (198)
                      +++.|..|+||||+...+...-.. ....         ...++    .+.++|+++....... .......+|.++++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~-~g~~---------v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAK-RGKR---------VLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-CCCe---------EEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            678899999999999888642111 0001         11111    5788899986433221 1456678899999998


Q ss_pred             CCCh
Q 043946           85 VTDQ   88 (198)
Q Consensus        85 ~~~~   88 (198)
                      ....
T Consensus        68 ~~~~   71 (99)
T cd01983          68 PEAL   71 (99)
T ss_pred             Cchh
Confidence            7754

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.74  E-value=2.5e-05  Score=55.23  Aligned_cols=23  Identities=35%  Similarity=0.725  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +||+|+|+|||||||+.++|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999999865

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.72  E-value=0.00021  Score=46.06  Aligned_cols=99  Identities=15%  Similarity=0.081  Sum_probs=57.8

Q ss_pred             cCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChh
Q 043946           10 GDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE   89 (198)
Q Consensus        10 G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~   89 (198)
                      +..|+||||+...|...-.........-     ........ ..+.++|+|+....  .....+..+|.++++.+.+ ..
T Consensus         7 ~kgg~gkt~~~~~la~~~~~~~~~~~~l-----~d~d~~~~-~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~   77 (106)
T cd03111           7 AKGGVGATTLAANLAVALAKEAGRRVLL-----VDLDLQFG-DDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LP   77 (106)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCcEEE-----EECCCCCC-CCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hH
Confidence            4567999998877753111000111111     11111111 15889999986433  2345678899999999776 44


Q ss_pred             hHHHHHHHHHHHHHhcCC-CCcEEEEEeC
Q 043946           90 SFNNVKQWLNEIDRYASE-NVNKLLVGNK  117 (198)
Q Consensus        90 s~~~~~~~~~~~~~~~~~-~~p~iiv~nK  117 (198)
                      ++..+..+.+.+...... ..++.+|+|+
T Consensus        78 s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          78 SIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            566677777777665443 4567788875

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.72  E-value=3.3e-05  Score=50.93  Aligned_cols=21  Identities=33%  Similarity=0.580  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++||||||+.+.|..
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999975

...

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.69  E-value=0.00046  Score=55.48  Aligned_cols=90  Identities=19%  Similarity=0.201  Sum_probs=50.5

Q ss_pred             EEEEEEeCCCccccc----cccccccc---CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFR----TITSSYYR---GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~----~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      +.+.++|++|.....    .....++.   ...-+.+|++++-..  ..+......+..   .+ +--++++|.|...  
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~--~~l~~~~~~f~~---~~-~~~vI~TKlDet~--  371 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKY--EDLKDIYKHFSR---LP-LDGLIFTKLDETS--  371 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCH--HHHHHHHHHhCC---CC-CCEEEEecccccc--
Confidence            568999999965432    11222222   234667888886432  222332222221   12 2357899999632  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          125 VVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                        ....+..+....+.++..++  +|.++
T Consensus       372 --~~G~i~~~~~~~~lPv~yit--~Gq~V  396 (424)
T PRK05703        372 --SLGSILSLLIESGLPISYLT--NGQRV  396 (424)
T ss_pred             --cccHHHHHHHHHCCCEEEEe--CCCCC
Confidence              34567777788888766554  45554

>TIGR00959 ffh signal recognition particle protein

Probab=97.67  E-value=0.00039  Score=55.78  Aligned_cols=86  Identities=16%  Similarity=0.086  Sum_probs=49.3

Q ss_pred             EEEEEEeCCCccccccccc------ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTITS------SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.|+||+|....+....      ...-..|.+++|+|+...+   ........+....  + ..-+++||.|...   
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v--~-i~giIlTKlD~~~---  253 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL--G-LTGVVLTKLDGDA---  253 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC--C-CCEEEEeCccCcc---
Confidence            5689999999533211110      1123468889999987543   2233333333222  1 2356789999632   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEec
Q 043946          126 VSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                       ....+.......++|+..++.
T Consensus       254 -~~G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       254 -RGGAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             -cccHHHHHHHHHCcCEEEEeC
Confidence             233466677777887766554

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.67  E-value=4.7e-05  Score=55.22  Aligned_cols=68  Identities=16%  Similarity=0.179  Sum_probs=38.1

Q ss_pred             EEEEEEeCCCccccccc------ccccccCccEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTI------TSSYYRGAHGIIIVYDVT------DQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~------~~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      ....++|+||+-++...      ...++..-|.-+.++.+.      +|..+  +...+-.+..+..-..|-+=|+.|+|
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~--iS~lL~sl~tMl~melphVNvlSK~D  174 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKF--ISSLLVSLATMLHMELPHVNVLSKAD  174 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHH--HHHHHHHHHHHHhhcccchhhhhHhH
Confidence            34689999997654221      122344445444444433      44433  33344344444444678888999999


Q ss_pred             CC
Q 043946          120 LT  121 (198)
Q Consensus       120 ~~  121 (198)
                      +.
T Consensus       175 l~  176 (290)
T KOG1533|consen  175 LL  176 (290)
T ss_pred             HH
Confidence            85

>PRK10867 signal recognition particle protein; Provisional

Probab=97.66  E-value=0.00026  Score=56.83  Aligned_cols=86  Identities=15%  Similarity=0.078  Sum_probs=47.9

Q ss_pred             EEEEEEeCCCccccccc----ccc--cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSS--YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.|+||+|.-.....    ...  -.-..+.+++|+|+...+.   +......+....  + ..-+|+||.|...   
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~---av~~a~~F~~~~--~-i~giIlTKlD~~~---  254 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQD---AVNTAKAFNEAL--G-LTGVILTKLDGDA---  254 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHH---HHHHHHHHHhhC--C-CCEEEEeCccCcc---
Confidence            56899999995432111    111  1124677899999876432   223333333211  1 2356779999632   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEec
Q 043946          126 VSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                       ..-.+.......++|+..++.
T Consensus       255 -rgG~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        255 -RGGAALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             -cccHHHHHHHHHCcCEEEEeC
Confidence             223356666777887666554

>PRK08118 topology modulation protein; Reviewed

Probab=97.66  E-value=4.2e-05  Score=53.58  Aligned_cols=23  Identities=39%  Similarity=0.666  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .||+|+|++|||||||.+.|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999998753

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.65  E-value=0.006  Score=42.43  Aligned_cols=139  Identities=11%  Similarity=0.098  Sum_probs=94.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .-.|+++|..+.++..|.+++.....      +..  .   .+..... +.+     |.      .....-.+.|.++|+
T Consensus        15 ~atiLLVg~e~~~~~~LA~a~l~~~~------~~~--l---~Vh~a~s-LPL-----p~------e~~~lRprIDlIVFv   71 (176)
T PF11111_consen   15 TATILLVGTEEALLQQLAEAMLEEDK------EFK--L---KVHLAKS-LPL-----PS------ENNNLRPRIDLIVFV   71 (176)
T ss_pred             eeEEEEecccHHHHHHHHHHHHhhcc------cee--E---EEEEecc-CCC-----cc------cccCCCceeEEEEEE
Confidence            45799999999999999999985321      111  1   1111100 111     11      111123457999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|.....++..++.-+..+....-. -.+.++++-....+...+..+++.+++..++++++.....+.++...+-+.|.+
T Consensus        72 inl~sk~SL~~ve~SL~~vd~~ffl-GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~lAqRLL~  150 (176)
T PF11111_consen   72 INLHSKYSLQSVEASLSHVDPSFFL-GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTSLAQRLLR  150 (176)
T ss_pred             EecCCcccHHHHHHHHhhCChhhhc-cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHHHHHHHHH
Confidence            9999999988887765555322222 356777777777666678899999999999999999999888877777777766


Q ss_pred             HHH
Q 043946          163 DIK  165 (198)
Q Consensus       163 ~~~  165 (198)
                      .+.
T Consensus       151 ~lq  153 (176)
T PF11111_consen  151 MLQ  153 (176)
T ss_pred             HHH
Confidence            554

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PRK07261 topology modulation protein; Provisional

Probab=97.64  E-value=4.4e-05  Score=53.67  Aligned_cols=22  Identities=41%  Similarity=0.661  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .||+|+|++|+|||||.+.|..
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4899999999999999999864

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.64  E-value=0.00038  Score=55.36  Aligned_cols=86  Identities=20%  Similarity=0.179  Sum_probs=47.5

Q ss_pred             EEEEEEeCCCcccccc----ccccccc-----CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           52 VKLQIWDTAGQERFRT----ITSSYYR-----GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~----~~~~~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      +.+.++||+|......    .+..++.     ...-.++|+|++....  .+......+...    -+--++++|.|...
T Consensus       300 ~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~--~~~~~~~~f~~~----~~~glIlTKLDEt~  373 (432)
T PRK12724        300 SELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYH--HTLTVLKAYESL----NYRRILLTKLDEAD  373 (432)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHH--HHHHHHHHhcCC----CCCEEEEEcccCCC
Confidence            5678999999643211    1222222     2346788999886531  222222222111    23456789999642


Q ss_pred             CCcCCHHHHHHHHHHhCCcEEEEec
Q 043946          123 KKVVSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                          ..-.+.......+.|+..++.
T Consensus       374 ----~~G~il~i~~~~~lPI~ylt~  394 (432)
T PRK12724        374 ----FLGSFLELADTYSKSFTYLSV  394 (432)
T ss_pred             ----CccHHHHHHHHHCCCEEEEec
Confidence                345566677777877655543

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.60  E-value=5.6e-05  Score=51.30  Aligned_cols=20  Identities=45%  Similarity=0.704  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+++|+||||||||++.|..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999974

...

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.59  E-value=0.00081  Score=52.95  Aligned_cols=128  Identities=19%  Similarity=0.257  Sum_probs=69.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC--CC-CCcccceeeeEEEEEEEC-------------------------------Ce
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY--LD-SYISTIGVDFKIRTVEQD-------------------------------GK   50 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~--~~-~~~~~~~~~~~~~~~~~~-------------------------------~~   50 (198)
                      .|+++||.||||||-+-.|..+-.  .. ....-+++    .++.++                               -.
T Consensus       205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITt----DtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~  280 (407)
T COG1419         205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITT----DTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALR  280 (407)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEe----ccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhh
Confidence            478999999999999888764322  00 11111111    111111                               12


Q ss_pred             EEEEEEEeCCCccccccc----ccccccC--ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           51 TVKLQIWDTAGQERFRTI----TSSYYRG--AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~----~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      .+.+.++||.|...++..    ...++..  ..-+-||++++...  ..+...+..+...   +. --++++|.|..   
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~--~dlkei~~~f~~~---~i-~~~I~TKlDET---  351 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKY--EDLKEIIKQFSLF---PI-DGLIFTKLDET---  351 (407)
T ss_pred             cCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcch--HHHHHHHHHhccC---Cc-ceeEEEccccc---
Confidence            245899999997655433    2223322  23455667776532  3344444434222   21 13468999953   


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEe
Q 043946          125 VVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                       -+.-.+.......+.|+..++
T Consensus       352 -~s~G~~~s~~~e~~~PV~YvT  372 (407)
T COG1419         352 -TSLGNLFSLMYETRLPVSYVT  372 (407)
T ss_pred             -CchhHHHHHHHHhCCCeEEEe
Confidence             246666777777776654443

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.58  E-value=4.5e-05  Score=53.49  Aligned_cols=23  Identities=43%  Similarity=0.668  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      =+++.||+||||||++++|....
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            37899999999999999998765

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.57  E-value=0.00065  Score=55.21  Aligned_cols=90  Identities=13%  Similarity=0.109  Sum_probs=48.2

Q ss_pred             EEEEEEeCCCcccccc---cccccccC---ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRT---ITSSYYRG---AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~---~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+.++|++|......   .....+..   ..-.++|+|+....  ..+.+....+   .. ....-+++||.|...   
T Consensus       335 ~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~~f---~~-~~~~g~IlTKlDet~---  405 (484)
T PRK06995        335 KHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQAY---RG-PGLAGCILTKLDEAA---  405 (484)
T ss_pred             CCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHHHh---cc-CCCCEEEEeCCCCcc---
Confidence            3578899999433221   11111111   22367888987532  2222222222   22 224456789999632   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          126 VSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                       ..-.+..+....++++..++  +|.+|
T Consensus       406 -~~G~~l~i~~~~~lPI~yvt--~GQ~V  430 (484)
T PRK06995        406 -SLGGALDVVIRYKLPLHYVS--NGQRV  430 (484)
T ss_pred             -cchHHHHHHHHHCCCeEEEe--cCCCC
Confidence             45566677778888776554  45566

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.57  E-value=0.0005  Score=46.26  Aligned_cols=24  Identities=38%  Similarity=0.538  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      --+++.|++|+|||++++.+...-
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999998643

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.55  E-value=0.00038  Score=54.67  Aligned_cols=91  Identities=16%  Similarity=0.150  Sum_probs=50.0

Q ss_pred             EEEEEEeCCCccccccc----cccccc--CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSSYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.|+||+|.......    ...+..  ..+.+++|.++...  ...+...+..+   ... -+--++++|.|...   
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~--~~d~~~i~~~f---~~l-~i~glI~TKLDET~---  356 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMK--SADVMTILPKL---AEI-PIDGFIITKMDETT---  356 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCccc--HHHHHHHHHhc---CcC-CCCEEEEEcccCCC---
Confidence            57899999997433221    112222  34666777776432  22223332222   211 23466799999642   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946          126 VSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                       ..-.+.......+.|+..++.  |.++.
T Consensus       357 -~~G~~Lsv~~~tglPIsylt~--GQ~Vp  382 (407)
T PRK12726        357 -RIGDLYTVMQETNLPVLYMTD--GQNIT  382 (407)
T ss_pred             -CccHHHHHHHHHCCCEEEEec--CCCCC
Confidence             456667777788887765553  44444

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.51  E-value=0.00011  Score=42.14  Aligned_cols=19  Identities=42%  Similarity=0.580  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|.|+.|+|||||++++.
T Consensus        26 tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999999875

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.51  E-value=6.6e-05  Score=52.29  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ||+|.|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999854

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.45  E-value=0.0062  Score=42.77  Aligned_cols=84  Identities=8%  Similarity=0.052  Sum_probs=51.6

Q ss_pred             EEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHH
Q 043946           53 KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAK  132 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~  132 (198)
                      .+.++|+|+....  .....+..+|.+|++++++. .++..+..+++.+....  .....+++|+.+.....  ..+...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEALG--IKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHcC--CceEEEEEeCCcccccc--hhhHHH
Confidence            5889999875433  23445688999999998774 34555555555554421  23567889999864321  222234


Q ss_pred             HHHHHhCCcEE
Q 043946          133 AFADEIGIPFM  143 (198)
Q Consensus       133 ~~~~~~~~~~~  143 (198)
                      .+.+.++.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            45555666654

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.44  E-value=0.00012  Score=52.21  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .=|+|+|++|||||||+++|...
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34899999999999999999864

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.44  E-value=0.00015  Score=42.91  Aligned_cols=21  Identities=33%  Similarity=0.620  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |.+.|++|+||||+.+.|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998854

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.43  E-value=0.0011  Score=46.75  Aligned_cols=84  Identities=21%  Similarity=0.318  Sum_probs=59.1

Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHH
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYET  130 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~  130 (198)
                      .+.+.++|+|+....  .....+..+|.+++++.++. .+...+..+.+.+...   +.|+.+|+||.|....   ..++
T Consensus        92 ~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~~  162 (179)
T cd03110          92 GAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTP-SGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAEE  162 (179)
T ss_pred             CCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCc-ccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHHH
Confidence            467899999965322  33456688999999998874 3555666666656543   5678899999996432   3456


Q ss_pred             HHHHHHHhCCcEE
Q 043946          131 AKAFADEIGIPFM  143 (198)
Q Consensus       131 ~~~~~~~~~~~~~  143 (198)
                      ++++++..+++++
T Consensus       163 ~~~~~~~~~~~vl  175 (179)
T cd03110         163 IEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHcCCCeE
Confidence            7778888887765

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PRK06217 hypothetical protein; Validated

Probab=97.42  E-value=0.00014  Score=51.64  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .+|+|+|.+|||||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999753

>PRK03839 putative kinase; Provisional

Probab=97.37  E-value=0.00016  Score=51.23  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|+|+|||||||+.++|...
T Consensus         1 m~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          1 MIIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999998653

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.37  E-value=0.00024  Score=51.11  Aligned_cols=26  Identities=27%  Similarity=0.164  Sum_probs=21.1

Q ss_pred             EEeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          144 ETSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      ++||++.+-+.|+++.+.+...+-++
T Consensus       163 PTSALDPElv~EVL~vm~~LA~eGmT  188 (240)
T COG1126         163 PTSALDPELVGEVLDVMKDLAEEGMT  188 (240)
T ss_pred             CcccCCHHHHHHHHHHHHHHHHcCCe
Confidence            68999999999999988877765443

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.37  E-value=0.00018  Score=48.86  Aligned_cols=22  Identities=18%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|+|+|+.|+|||||++.|++.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999753

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.36  E-value=0.00021  Score=52.45  Aligned_cols=21  Identities=43%  Similarity=0.564  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+++|++|||||||+|-+.+-
T Consensus        32 vsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999988764

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.35  E-value=0.0034  Score=49.86  Aligned_cols=90  Identities=16%  Similarity=0.124  Sum_probs=51.1

Q ss_pred             EEEEEEeCCCcccccc----cccccccC---ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRT----ITSSYYRG---AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~----~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      +.+.++|++|......    ....++..   -.-.++|+|++...  ..+...+.   .+... -+--++++|.|...  
T Consensus       255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~--~~~~~~~~---~~~~~-~~~~~I~TKlDet~--  326 (388)
T PRK12723        255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT--SDVKEIFH---QFSPF-SYKTVIFTKLDETT--  326 (388)
T ss_pred             CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH--HHHHHHHH---HhcCC-CCCEEEEEeccCCC--
Confidence            5689999999654321    11222222   22578999998753  22233332   22221 24466899999632  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          125 VVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                        ..-.+..+....+.|+..++  +|.++
T Consensus       327 --~~G~~l~~~~~~~~Pi~yit--~Gq~v  351 (388)
T PRK12723        327 --CVGNLISLIYEMRKEVSYVT--DGQIV  351 (388)
T ss_pred             --cchHHHHHHHHHCCCEEEEe--CCCCC
Confidence              35566667777787765443  46666

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.33  E-value=0.00024  Score=48.02  Aligned_cols=21  Identities=52%  Similarity=0.844  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999853

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.33  E-value=0.0002  Score=47.45  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998753

...

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.31  E-value=0.0019  Score=55.22  Aligned_cols=92  Identities=15%  Similarity=0.093  Sum_probs=50.8

Q ss_pred             EEEEEEeCCCccccc----cccccc--ccCccEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFR----TITSSY--YRGAHGIIIVYDVTDQ-ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~----~~~~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      +.+.|+||+|.....    ......  ....+-+++|+|++.. +.+..+..   .+...... -+-=+|++|.|...  
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~---~f~~~~~~-~i~glIlTKLDEt~--  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVH---AYRHGAGE-DVDGCIITKLDEAT--  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHH---HHhhcccC-CCCEEEEeccCCCC--
Confidence            458899999943221    111111  2335567899998753 23333322   22221111 13456799999642  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          125 VVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                        ..-.+..+....++++..++  +|.+|
T Consensus       338 --~~G~iL~i~~~~~lPI~yit--~GQ~V  362 (767)
T PRK14723        338 --HLGPALDTVIRHRLPVHYVS--TGQKV  362 (767)
T ss_pred             --CccHHHHHHHHHCCCeEEEe--cCCCC
Confidence              34556667777788766554  45555

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.31  E-value=0.00023  Score=47.88  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|+|||||++.+.+.
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEEccCCCccccceeeeccc
Confidence            4789999999999999988864

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.27  E-value=0.00024  Score=47.26  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999999864

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.26  E-value=0.00098  Score=44.67  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|+.|+|||||++.+...
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999854

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.26  E-value=0.00053  Score=53.18  Aligned_cols=128  Identities=24%  Similarity=0.205  Sum_probs=71.8

Q ss_pred             eCCCcc-cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH
Q 043946           58 DTAGQE-RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD  136 (198)
Q Consensus        58 D~~g~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~  136 (198)
                      +.||+. .+.......+...|+++.|+|+-++.+.     +-..+.+... +.|.++|+||.|+..... ..+=.+.+..
T Consensus        16 ~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s-----~~~~l~~~v~-~k~~i~vlNK~DL~~~~~-~~~W~~~~~~   88 (322)
T COG1161          16 WFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGT-----RNPELERIVK-EKPKLLVLNKADLAPKEV-TKKWKKYFKK   88 (322)
T ss_pred             CCCCchHHHHHHHHHhcccCCEEEEEEeccccccc-----cCccHHHHHc-cCCcEEEEehhhcCCHHH-HHHHHHHHHh
Confidence            446654 4455677788999999999999987642     1111222222 356699999999965432 1222223333


Q ss_pred             HhCCcEEEEeccCCCCHHHHHHHHHHHH---HHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          137 EIGIPFMETSAKDSLNVEQAFMAMTADI---KNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       137 ~~~~~~~~~S~~~~~~i~~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ..+...+.+++..+.+...+...+....   .++....-.  .+.....-.-+-++++||+
T Consensus        89 ~~~~~~~~v~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~--~~~~~~v~vvG~PNVGKSs  147 (322)
T COG1161          89 EEGIKPIFVSAKSRQGGKKIRKALEKLSEEKIKRLKKKGL--LKRKIRVGVVGYPNVGKST  147 (322)
T ss_pred             cCCCccEEEEeecccCccchHHHHHHHHHHHHHHHhhcCC--CccceEEEEEcCCCCcHHH
Confidence            3356678888888777666654333222   222222111  1222334455666666664

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.26  E-value=0.00033  Score=51.09  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|++|||||||+|-+.+-
T Consensus        34 vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          34 VAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            689999999999999988753

>PRK14530 adenylate kinase; Provisional

Probab=97.25  E-value=0.00027  Score=51.62  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+|+|+|+|||||||+.+.|..
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998863

>PRK01889 GTPase RsgA; Reviewed

Probab=97.25  E-value=0.00034  Score=55.00  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++++|.+|+|||||+|.|.+.
T Consensus       197 ~~~lvG~sgvGKStLin~L~g~  218 (356)
T PRK01889        197 TVALLGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             EEEEECCCCccHHHHHHHHHHh
Confidence            6899999999999999999864

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.25  E-value=0.00026  Score=50.47  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.|...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999653

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.24  E-value=0.00029  Score=51.99  Aligned_cols=24  Identities=33%  Similarity=0.614  Sum_probs=21.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+|++|+|++|||||+|+..|+.
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998875

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK14532 adenylate kinase; Provisional

Probab=97.23  E-value=0.00028  Score=50.31  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+++|+|||||||+.++|..
T Consensus         1 ~~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          1 MNLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999874

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.22  E-value=0.00028  Score=49.90  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK14531 adenylate kinase; Provisional

Probab=97.21  E-value=0.00034  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+|+++|+|||||||+.+.|..
T Consensus         2 ~~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          2 KQRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.20  E-value=0.00038  Score=50.46  Aligned_cols=24  Identities=33%  Similarity=0.609  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..-|+|+|++|||||||++.|...
T Consensus        13 ~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         13 PLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhc
Confidence            456889999999999999999753

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.20  E-value=0.00032  Score=51.64  Aligned_cols=23  Identities=30%  Similarity=0.553  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|+|+|||||||+.+.|..
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999998854

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.19  E-value=0.00037  Score=46.46  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSY   28 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~   28 (198)
                      -.++++|++|+|||++++.+...-.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            3689999999999999999986543

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.19  E-value=0.0043  Score=46.85  Aligned_cols=85  Identities=14%  Similarity=0.074  Sum_probs=48.2

Q ss_pred             EEEEEEeCCCccccccc----ccccc--cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSSYY--RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.++|++|.......    ...++  ...+-+++|+|++...  ..+..+...+...    .+--++++|.|...   
T Consensus       155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~~f~~~----~~~~~I~TKlDet~---  225 (270)
T PRK06731        155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKDI----HIDGIVFTKFDETA---  225 (270)
T ss_pred             CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHHHhCCC----CCCEEEEEeecCCC---
Confidence            57899999996532111    11222  2346789999986422  1223333333221    23466899999643   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEe
Q 043946          126 VSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S  146 (198)
                       ..-.+..++...+.|+..++
T Consensus       226 -~~G~~l~~~~~~~~Pi~~it  245 (270)
T PRK06731        226 -SSGELLKIPAVSSAPIVLMT  245 (270)
T ss_pred             -CccHHHHHHHHHCcCEEEEe
Confidence             34455666667787765554

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.17  E-value=0.00037  Score=44.77  Aligned_cols=20  Identities=45%  Similarity=0.780  Sum_probs=17.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      .++++|++|+|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            47999999999999998875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.17  E-value=0.00013  Score=56.85  Aligned_cols=81  Identities=19%  Similarity=0.172  Sum_probs=46.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc--cccccccccCccEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--RTITSSYYRGAHGII   80 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--~~~~~~~~~~~d~~i   80 (198)
                      .|-|.++|.||+||||+||.|-....-... | ++-+..+..+..-.  .++.++|+||.---  +......   ..+++
T Consensus       307 qISVGfiGYPNvGKSSiINTLR~KkVCkvA-P-IpGETKVWQYItLm--krIfLIDcPGvVyps~dset~iv---LkGvV  379 (572)
T KOG2423|consen  307 QISVGFIGYPNVGKSSIINTLRKKKVCKVA-P-IPGETKVWQYITLM--KRIFLIDCPGVVYPSSDSETDIV---LKGVV  379 (572)
T ss_pred             ceeeeeecCCCCchHHHHHHHhhccccccc-C-CCCcchHHHHHHHH--hceeEecCCCccCCCCCchHHHH---hhcee
Confidence            477999999999999999999876543221 1 11112111111111  35788899994311  1111111   24677


Q ss_pred             EEEECCChhh
Q 043946           81 IVYDVTDQES   90 (198)
Q Consensus        81 ~v~d~~~~~s   90 (198)
                      =|-.+.+++.
T Consensus       380 RVenv~~pe~  389 (572)
T KOG2423|consen  380 RVENVKNPED  389 (572)
T ss_pred             eeeecCCHHH
Confidence            7777777653

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.16  E-value=0.00034  Score=49.69  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.|+|+|++||||||+++.|..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999973

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK13949 shikimate kinase; Provisional

Probab=97.16  E-value=0.00041  Score=48.69  Aligned_cols=21  Identities=33%  Similarity=0.564  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +|+|+|++||||||+.+.|..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998864

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.15  E-value=0.00037  Score=49.25  Aligned_cols=22  Identities=36%  Similarity=0.643  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|+|+|++|||||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4799999999999999999863

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.15  E-value=0.0044  Score=51.12  Aligned_cols=20  Identities=45%  Similarity=0.637  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      .++-||+||||||.++.|..
T Consensus        48 LlLtGP~G~GKtttv~~La~   67 (519)
T PF03215_consen   48 LLLTGPSGCGKTTTVKVLAK   67 (519)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            36689999999999998874

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.14  E-value=0.0035  Score=44.33  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4789999999999999988864

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.13  E-value=0.00047  Score=48.97  Aligned_cols=22  Identities=27%  Similarity=0.590  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +||+|+|+|||||||+.+.|..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998864

>PRK00625 shikimate kinase; Provisional

Probab=97.13  E-value=0.00042  Score=48.81  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+++|.+||||||+.+.|..
T Consensus         1 ~~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          1 MQIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.12  E-value=0.00035  Score=47.26  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=21.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +..+|+|.|.||+|||||..++..
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHH
Confidence            457999999999999999999874

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.11  E-value=0.0004  Score=49.95  Aligned_cols=20  Identities=50%  Similarity=0.612  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++||+|||||||++.|-.
T Consensus        36 TAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            48999999999999988753

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.09  E-value=0.00048  Score=46.54  Aligned_cols=21  Identities=38%  Similarity=0.653  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++|+|||+|++.+..
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~   21 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAA   21 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            379999999999999998874

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK08233 hypothetical protein; Provisional

Probab=97.08  E-value=0.00059  Score=48.22  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+-|+|.|.+|||||||.++|..
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35688999999999999999975

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.08  E-value=0.00043  Score=49.49  Aligned_cols=22  Identities=36%  Similarity=0.643  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +|+|+|+|||||||+.+.|...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.08  E-value=0.00047  Score=51.33  Aligned_cols=20  Identities=40%  Similarity=0.534  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++++|+.|||||||++.+.+
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            58999999999999999875

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.07  E-value=0.00046  Score=49.64  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|.|++|||||||++.|...
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999998753

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.07  E-value=0.00054  Score=48.36  Aligned_cols=20  Identities=35%  Similarity=0.376  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      .++|+|+.|+|||||++.+.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999999875

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.06  E-value=0.00051  Score=50.12  Aligned_cols=21  Identities=43%  Similarity=0.631  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+++|++|+|||||++.+.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            378999999999999998876

>PRK06547 hypothetical protein; Provisional

Probab=97.06  E-value=0.0007  Score=47.63  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=21.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..+.|+|.|.+|||||||.+.|...
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4577889999999999999999753

>TIGR00235 udk uridine kinase

Probab=97.06  E-value=0.00065  Score=49.26  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..-|+|.|++|||||||++.|.+
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999975

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.05  E-value=0.00064  Score=49.35  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+.|+|.|++|||||||.+.|..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999875

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.05  E-value=0.00063  Score=47.73  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .-+.|+|++|+|||||++++...
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHH
Confidence            45799999999999999999854

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.05  E-value=0.00058  Score=48.67  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|+|||||++.|.+.
T Consensus        27 ~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          27 NILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998864

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>TIGR01351 adk adenylate kinases

Probab=97.05  E-value=0.00048  Score=50.10  Aligned_cols=21  Identities=38%  Similarity=0.680  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      ||+|+|+|||||||+...|..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.04  E-value=0.00054  Score=48.55  Aligned_cols=20  Identities=20%  Similarity=0.551  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+++|+|||||||+.++|..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.03  E-value=0.00055  Score=47.51  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 043946            4 FKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~   24 (198)
                      ++|+|-|.||+||||+.++|.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            579999999999999999987

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.02  E-value=0.0006  Score=49.74  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 ~~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          1 MRLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988863

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.01  E-value=0.00052  Score=50.28  Aligned_cols=20  Identities=25%  Similarity=0.280  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |.|.|++|||||||++.|..
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            68999999999999999875

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.01  E-value=0.00076  Score=52.24  Aligned_cols=21  Identities=48%  Similarity=0.638  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++||+|||||||++-+.+-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998764

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=97.00  E-value=0.00064  Score=54.22  Aligned_cols=25  Identities=24%  Similarity=0.482  Sum_probs=22.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +..+|+|+|.+|+|||||++.|...
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999853

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=97.00  E-value=0.00088  Score=47.11  Aligned_cols=22  Identities=41%  Similarity=0.489  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++|+|++|+|||||+|-+.+-
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF   48 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGF   48 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhc
Confidence            5799999999999999977653

>PRK14529 adenylate kinase; Provisional

Probab=96.96  E-value=0.00072  Score=49.51  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~l~G~PGsGK~T~a~~La~   22 (223)
T PRK14529          1 MNILIFGPNGSGKGTQGALVKK   22 (223)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988863

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.96  E-value=0.0022  Score=42.37  Aligned_cols=21  Identities=38%  Similarity=0.615  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|++-|+-|+|||||.+.+..
T Consensus        17 vi~L~GdLGaGKTtf~r~l~~   37 (123)
T PF02367_consen   17 VILLSGDLGAGKTTFVRGLAR   37 (123)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999874

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.96  E-value=0.00077  Score=49.23  Aligned_cols=22  Identities=36%  Similarity=0.449  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|+|||||++.+.+.
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4789999999999999999874

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.95  E-value=0.00069  Score=48.94  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|+|+|++|||||||++.|...
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	198
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		2e-85
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-84
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-84
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		3e-84
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		1e-83
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-83
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		3e-82
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		4e-82
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		7e-82
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		8e-82
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-77
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		2e-76
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-74
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		4e-73
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-61
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-61
4fmc_F	117	Espg-Rab1 Complex Length = 117		5e-61
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		3e-56
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-53
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-53
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		6e-53
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		6e-53
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		8e-53
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		4e-52
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		3e-51
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		8e-51
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-50
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-50
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-47
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-46
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-46
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-46
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		4e-46
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		5e-46
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		6e-46
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-45
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-45
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-45
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		6e-45
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		7e-45
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-43
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		8e-43
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		3e-42
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		3e-42
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		7e-42
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-41
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-41
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		4e-41
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		4e-41
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		4e-41
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		4e-41
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-41
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		5e-41
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		6e-41
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		8e-41
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-40
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-40
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		6e-40
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-39
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-39
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-39
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-39
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		2e-39
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		4e-39
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		5e-39
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-38
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-37
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-37
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		8e-37
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-37
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-36
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-36
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		3e-36
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		3e-36
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		7e-36
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-35
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-35
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-35
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-35
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		2e-35
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-35
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		8e-35
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-34
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-34
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-34
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		8e-34
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		4e-33
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		6e-33
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		7e-33
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		6e-32
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-31
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-31
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		5e-31
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		5e-31
1vg1_A	185	Gdp-bound Rab7 Length = 185		9e-31
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-30
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		2e-30
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-30
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		4e-30
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-27
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		6e-27
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		8e-27
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		8e-27
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		8e-27
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		3e-26
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		4e-26
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		7e-26
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		4e-25
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-25
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-25
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		6e-25
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		2e-24
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		3e-23
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-23
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		4e-23
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		4e-23
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-23
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		5e-23
1byu_A	216	Canine Gdp-Ran Length = 216		6e-23
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		7e-23
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		7e-23
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		9e-23
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		1e-22
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		1e-22
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-22
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-22
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-22
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-22
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		3e-22
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		3e-22
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		1e-21
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		1e-21
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-21
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-21
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-21
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		6e-21
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		9e-21
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		9e-21
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-20
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-20
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-20
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-20
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-20
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-20
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		1e-20
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-20
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-20
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-20
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		3e-20
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		3e-20
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		3e-20
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-20
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-20
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-20
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		4e-20
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		4e-20
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		4e-20
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		5e-20
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		5e-20
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		7e-20
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		8e-20
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		9e-20
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		9e-20
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		9e-20
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		1e-19
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		1e-19
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-19
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-19
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-19
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-19
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		3e-19
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		3e-19
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		3e-19
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		3e-19
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		3e-19
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		4e-19
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		5e-19
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-19
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-19
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		6e-19
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		7e-19
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		8e-19
1s1c_A	183	Crystal Structure Of The Complex Between The Human		8e-19
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		9e-19
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-18
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		1e-18
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		1e-18
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		1e-18
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-18
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		1e-18
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		2e-18
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-18
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-18
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		3e-18
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-18
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		3e-18
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		4e-18
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		4e-18
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		5e-18
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		5e-18
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		6e-18
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		7e-18
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		8e-18
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		8e-18
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		9e-18
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		1e-17
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		1e-17
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		1e-17
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		1e-17
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-17
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-17
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-17
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		3e-17
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		3e-17
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		3e-17
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		3e-17
1mh1_A	186	Small G-Protein Length = 186		3e-17
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		3e-17
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		3e-17
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		3e-17
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		3e-17
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		4e-17
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		4e-17
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		4e-17
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		5e-17
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		6e-17
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		6e-17
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		6e-17
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		6e-17
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		9e-17
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-16
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-16
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-16
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		1e-16
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		2e-16
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		3e-16
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		3e-16
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-16
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-16
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		1e-15
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-15
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		3e-15
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		4e-15
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		5e-15
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		1e-14
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		1e-14
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-14
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		1e-14
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		1e-14
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		6e-14
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		7e-14
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		7e-14
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		8e-14
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		8e-14
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		9e-14
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		9e-14
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		9e-14
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		9e-14
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		9e-14
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		1e-13
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		1e-13
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		1e-13
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-13
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		1e-13
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		1e-13
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		1e-13
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		1e-13
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		2e-13
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		3e-13
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-13
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		4e-13
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		4e-13
2kb0_A	178	Cdc42(T35a) Length = 178		5e-13
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		6e-13
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		6e-13
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		7e-13
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		7e-13
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		8e-13
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		8e-13
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		9e-13
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-12
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		3e-12
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		8e-12
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		2e-11
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-11
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		3e-11
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		9e-11
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-10
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-10
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		2e-10
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		4e-10
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		9e-10
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		9e-10
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		9e-10
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		1e-09
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-09
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		3e-09
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		6e-09
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		6e-09
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		6e-09
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		7e-09
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		7e-09
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		7e-09
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		1e-08
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		3e-08
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		3e-08
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		3e-08
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		3e-08
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		4e-08
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		5e-08
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		5e-08
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		1e-07
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		1e-07
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		2e-07
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		2e-07
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		2e-07
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		2e-07
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		2e-07
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		3e-07
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		5e-07
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		1e-06
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		2e-06
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		3e-06
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		5e-06
4goj_A	189	The Crystal Structure Of Full Length Arl3gppnhp In		5e-06
1fzq_A	181	Crystal Structure Of Murine Arl3-Gdp Length = 181		5e-06
3bh7_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		1e-05
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-05
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		2e-05
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		2e-05
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		2e-05
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		3e-05
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		6e-05
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		7e-05
3bh6_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		9e-05
1upt_A	171	Structure Of A Complex Of The Golgin-245 Grip Domai		2e-04
2gao_A	208	Crystal Structure Of Human Sar1a In Complex With Gd		3e-04
2bmj_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		8e-04
2iwr_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		8e-04

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  311 bits (796), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 147/183 (80%), Positives = 159/183 (86%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 14  DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 73
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 74  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 133
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct: 134 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 193
Query: 181 TVQ 183
            V+
Sbjct: 194 NVK 196

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  308 bits (790), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 145/168 (86%), Positives = 156/168 (92%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 63
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 64  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 123
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM
Sbjct: 124 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  308 bits (789), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 145/169 (85%), Positives = 156/169 (92%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 23  DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 82
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 83  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 142
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM 
Sbjct: 143 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 191

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  307 bits (786), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 144/168 (85%), Positives = 156/168 (92%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGK+CLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 14  DYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 73
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 74  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 133
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM
Sbjct: 134 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  305 bits (781), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 144/168 (85%), Positives = 155/168 (92%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D LFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 4   DALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 63
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 64  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 123
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM
Sbjct: 124 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  305 bits (780), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 144/169 (85%), Positives = 155/169 (91%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVG KCDL
Sbjct: 66  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM 
Sbjct: 126 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 174

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  300 bits (769), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 141/164 (85%), Positives = 152/164 (92%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           FRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDLT KK
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           VV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM
Sbjct: 121 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  300 bits (768), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 142/169 (84%), Positives = 153/169 (90%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 31  DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 90
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 91  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 150
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+F    A+IK R  
Sbjct: 151 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEIKKRXG 199

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  299 bits (765), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 142/169 (84%), Positives = 153/169 (90%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 7   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 66
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQES+ NVKQWL EIDRYASENVNKLLVGNK DL
Sbjct: 67  GQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDL 126
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV   TAK FAD +GIPF+ETSAK++ NVEQAFM M A+IK RM 
Sbjct: 127 TTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMG 175

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  299 bits (765), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 142/169 (84%), Positives = 153/169 (90%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 7   DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 66
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQES+ NVKQWL EIDRYASENVNKLLVGNK DL
Sbjct: 67  GQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDL 126
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV   TAK FAD +GIPF+ETSAK++ NVEQAFM M A+IK RM 
Sbjct: 127 TTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMG 175

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  283 bits (725), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 138/200 (69%), Positives = 154/200 (77%), Gaps = 4/200 (2%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIG+SGVGKSCLLLRF+DD+Y + YISTIGVDFKI+TVE DGKTVKLQIWDTA
Sbjct: 6   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRG+HGIIIVYDVTDQESFN VK WL EIDRYA+  V KLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            DK+VV Y+ AK FAD   +PF+ETSA DS NVE AF+ M   IK  M+ Q      +  
Sbjct: 126 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 185
Query: 181 ----TVQIKGQPVNQKASCC 196
                V +KGQ +     CC
Sbjct: 186 EDKGNVNLKGQSLTNTGGCC 205

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  281 bits (718), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 139/201 (69%), Positives = 155/201 (77%), Gaps = 5/201 (2%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIG+SGVGKSCLLLRF+DD+Y + YISTIGVDFKI+TVE DGKTVKLQIWDTA
Sbjct: 6   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRG+HGIIIVYDVTDQESFN VK WL EIDRYA+  V KLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            DK+VV Y+ AK FAD   +PF+ETSA DS NVE AF+ M   IK  M+ Q      +  
Sbjct: 126 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 185
Query: 181 ----TVQIKGQPV-NQKASCC 196
                V +KGQ + N    CC
Sbjct: 186 EDKGNVNLKGQSLTNTGGGCC 206

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  274 bits (701), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 130/168 (77%), Positives = 146/168 (86%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y DSYISTIGVDFKIRT+  + KTVKLQIWDTA
Sbjct: 7   DYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTA 66
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGIIIVYDVTD++SF+NVKQW+ EIDRYA ENVNKLLVGNKCDL
Sbjct: 67  GQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDL 126
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
             K+VV+ +  +  AD  GI F+ETSAK++ NVEQAF  M  +IK R+
Sbjct: 127 VSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRV 174

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  270 bits (690), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 130/165 (78%), Positives = 142/165 (86%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIG+SGVGKSCLLLRF+DD+Y + YISTIGVDFKI+TVE DGKTVKLQIWDTA
Sbjct: 19  DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 78
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRG+HGIIIVYDVTDQESFN VK WL EIDRYA+  V KLLVGNKCDL
Sbjct: 79  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 138
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            DK+VV Y+ AK FAD   +PF+ETSA DS NVE AF+ M   IK
Sbjct: 139 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIK 183

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  231 bits (588), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 102/168 (60%), Positives = 139/168 (82%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGK+C+L RF++D++  ++ISTIG+DFKIRT+E DGK +KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GI++VYD+T+++SF+N++ W+  I+ +AS +V K+++GNKCD+
Sbjct: 66  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            DK+ VS E  +  A + GI FMETSAK ++NVE AF  +  DIK +M
Sbjct: 126 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 173

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  231 bits (588), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 102/168 (60%), Positives = 139/168 (82%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGK+C+L RF++D++  ++ISTIG+DFKIRT+E DGK +KLQIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GI++VYD+T+++SF+N++ W+  I+ +AS +V K+++GNKCD+
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 123
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            DK+ VS E  +  A + GI FMETSAK ++NVE AF  +  DIK +M
Sbjct: 124 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 171

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  229 bits (585), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 108/116 (93%), Positives = 113/116 (97%)
Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           LLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 66  RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           RTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDLT
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 116

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  214 bits (545), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 105/161 (65%), Positives = 133/161 (82%), Gaps = 1/161 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFKLL+IGDSGVGKS LLLRFAD+++  SYI+TIGVDFKIRTVE +G+ VKLQIWDTA
Sbjct: 7   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTA 66
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITS+YYRG HG+I+VYDVT  ESF NVK+WL+EI++   ++V ++LVGNK D 
Sbjct: 67  GQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQ-NCDDVCRILVGNKNDD 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT 161
            ++KVV  E A  FA ++GI   ETSAK+++NVE+ F  +T
Sbjct: 126 PERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCIT 166

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  204 bits (520), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 94/170 (55%), Positives = 132/170 (77%), Gaps = 1/170 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYD+TD+ +F N+KQW   ++ +A++    LLVGNK D+
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  204 bits (520), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 94/170 (55%), Positives = 132/170 (77%), Gaps = 1/170 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQ+WDTA
Sbjct: 18  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 77
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYDVTD+ +F N+KQW   ++ +A++    LLVGNK D+
Sbjct: 78  GQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 137
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 138 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 186

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  203 bits (516), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 93/168 (55%), Positives = 131/168 (77%), Gaps = 1/168 (0%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQ+WDTAGQ
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           ERFRTIT++YYRGA GII+VYDVTD+ +F N+KQW   ++ +A++    LLVGNK D+ +
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 125
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 126 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 173

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  203 bits (516), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 94/170 (55%), Positives = 131/170 (77%), Gaps = 1/170 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQIWDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYD+TD+ +F N+KQW   ++ +A++    LLVGNK D 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD- 119
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 120 XETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  202 bits (515), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 94/170 (55%), Positives = 131/170 (77%), Gaps = 1/170 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQ+WDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 60
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYDVTD+ +F N+KQW   ++ +A++    LLVGNK D 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD- 119
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 120 XETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  200 bits (509), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 86/157 (54%), Positives = 124/157 (78%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FK+L+IG+S VGK+  L R+ADDS+  +++ST+G+DFK++T+ ++ K +KLQIWDTA
Sbjct: 3   DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 62
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   LLVGNKCD+
Sbjct: 63  GQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM 122
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
            D++VVS E  +  AD +G  F E SAKD++NV+Q F
Sbjct: 123 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTF 159

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  197 bits (501), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 88/173 (50%), Positives = 127/173 (73%), Gaps = 1/173 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           D  FK++L+GDSGVGK+CLL+RF D ++L  ++IST+G+DF+ + ++ DG  VKLQ+WDT
Sbjct: 8   DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDT 67
Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
           AGQERFR++T +YYR AH ++++YDVT++ SF+N++ WL EI  YA  +V  +L+GNK D
Sbjct: 68  AGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD 127
Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
              ++VV  E  +  A E G+PFMETSAK  LNV+ AF A+  ++K R    P
Sbjct: 128 SAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  196 bits (497), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 90/188 (47%), Positives = 131/188 (69%), Gaps = 2/188 (1%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY FK+L+IG+S VGK+  L R+ADDS+  +++ST+G+DFK++T+ ++ K +KLQIWDTA
Sbjct: 6   DYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+RTIT++YYRGA G I+ YD+T++ESFN V+ W  +I  Y+ +N   LLVGNKCD 
Sbjct: 66  GLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDX 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            D++VVS E  +  AD +G  F E SAKD++NV+Q F  +   I  + +   +++ A P 
Sbjct: 126 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKXSE--SLDTADPA 183
Query: 181 TVQIKGQP 188
               K  P
Sbjct: 184 VTGAKQGP 191

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  195 bits (496), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 87/168 (51%), Positives = 125/168 (74%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FKLLLIG+S VGK+  L R+ADDS+  +++ST+G+DFK++TV +  K +KLQIWDTA
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTA 79
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G +++YD+ +QESF  V+ W  +I  Y+ +N   +LVGNKCDL
Sbjct: 80  GQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL 139
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            D++VV  E  +  AD++G  F E SAK+++NV+Q F  +   I  +M
Sbjct: 140 EDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM 187

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  195 bits (495), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 85/169 (50%), Positives = 129/169 (76%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FKLL+IG+S VGK+  L R+ADD++  +++ST+G+DFK++TV +  K VKLQIWDTA
Sbjct: 21  DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTA 80
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   +LVGNKCD+
Sbjct: 81  GQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDM 140
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
            +++VV  E  +  A+++G  F E SAK++++V QAF  +   I ++M+
Sbjct: 141 EEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  184 bits (467), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 87/167 (52%), Positives = 120/167 (71%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R V  DGK +KLQIWDTAG
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QE FR+IT SYYRGA G ++VYD+T +E+FN++  WL +  +++S N+  +L+GNK DL 
Sbjct: 80  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ V  E  +AFA E G+ FMETSAK + NVE+AF+    +I  ++
Sbjct: 140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 186

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  181 bits (460), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/164 (53%), Positives = 118/164 (71%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 18  DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 77
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 78  GQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 137
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 138 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 181

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 87/164 (53%), Positives = 118/164 (71%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 27  DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 86
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 87  GQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 146
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 147 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  181 bits (458), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 83/169 (49%), Positives = 124/169 (73%), Gaps = 1/169 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+  ++++IG  GVGK+ L+ RF DD++ ++  ST+GVDFKI+TVE  GK ++LQIWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERF +ITS+YYR A GII+VYD+T +E+F+++ +W+  ID+YASE+   LLVGNK D 
Sbjct: 84  GQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC 143
Query: 121 TDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
              + ++ +  + FA +I G+ F E SAKD+ NV++ F+ +  DI  +M
Sbjct: 144 ETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  180 bits (457), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 88/175 (50%), Positives = 127/175 (72%), Gaps = 4/175 (2%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK++LIG++GVGK+CL+ RF    +     +TIGVDF I+TVE +G+ VKLQIWDTA
Sbjct: 24  DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTA 83
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR+IT SYYR A+ +I+ YD+T +ESF  + +WL EI++YAS  V  +LVGNK DL
Sbjct: 84  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDL 143
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMN 175
            +++ VS + A+ F++   + ++ETSAK+S NVE+ F+    D+  R+ S+   N
Sbjct: 144 AERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFL----DLACRLISEARQN 194

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  180 bits (456), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 84/163 (51%), Positives = 118/163 (72%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R +  DGK +KLQIWDTAG
Sbjct: 9   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAG 68
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QE FR+IT SYYRGA G ++VYD+T +++FN++  WL +  ++++ N+  +L+GNK DL 
Sbjct: 69  QESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLE 128
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ V  E  +AFA E G+ FMETSAK + NVE+AF+    +I
Sbjct: 129 SRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 171

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  180 bits (456), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 89/171 (52%), Positives = 122/171 (71%), Gaps = 1/171 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 3   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 62
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 63  GQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 122
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
              + V  + A+AFA++  + F+ETSA DS NVE+AF  +  +I  R+ SQ
Sbjct: 123 RHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIY-RIVSQ 172

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  178 bits (452), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 88/180 (48%), Positives = 126/180 (70%), Gaps = 9/180 (5%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFKL+L+GD+ VGK+C++ RF   ++ +   STIGVDF ++T+E  GK VKLQIWDTA
Sbjct: 27  DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTA 86
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT SYYR A+G I+ YD+T + SF +V  W+ ++ +YA  N+ +LL+GNK DL
Sbjct: 87  GQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDL 146
Query: 121 TDKKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP 179
           ++ + VS   A++ A+   I   +ETSAKDS NVE+AF+        R+A++  M +  P
Sbjct: 147 SELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFL--------RVATELIMRHGGP 198

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  178 bits (451), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 86/164 (52%), Positives = 117/164 (71%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 27  DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 86
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 87  GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 146
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 147 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  178 bits (451), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 86/164 (52%), Positives = 117/164 (71%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 6   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 66  GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 126 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 169

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  176 bits (447), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 86/164 (52%), Positives = 116/164 (70%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 3   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 62
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+   LVGNK DL
Sbjct: 63  GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL 122
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 123 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 166

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  176 bits (447), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 86/164 (52%), Positives = 116/164 (70%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 9   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 68
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+   LVGNK DL
Sbjct: 69  GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDL 128
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 129 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 172

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  170 bits (431), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 79/163 (48%), Positives = 110/163 (67%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y+FK ++IGD GVGKSCLL +F +  ++     TIGV+F  R +E  G+ +KLQIWDTAG
Sbjct: 14  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 73
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERFR +T SYYRGA G ++VYD+T + ++N++  WL +     + N   +L+GNK DL 
Sbjct: 74  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 133
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ V+YE AK FA+E G+ F+E SAK   NVE AF+     I
Sbjct: 134 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  169 bits (428), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 96/213 (45%), Positives = 129/213 (60%), Gaps = 17/213 (7%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D LFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+E +GK +K QIWDTA
Sbjct: 11  DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTA 70
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G +IVYD++   S+ N   WL+E+   A +NV   L+GNK DL
Sbjct: 71  GQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDL 130
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM-----------TADIKNRMA 169
              + V  E +K FA E  + F ETSA +S NV++AF  +             D+ +  A
Sbjct: 131 AHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSA 190
Query: 170 SQPAMNNARP--PTVQIKGQP-VNQKA---SCC 196
           +  A   + P  PT+ +   P  N+KA   +CC
Sbjct: 191 NGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  167 bits (424), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 78/163 (47%), Positives = 109/163 (66%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y+FK ++IGD GVGKSCLL +F +  ++     TIGV+F  R +E  G+ +KLQIWDTAG
Sbjct: 29  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG 88
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           Q RFR +T SYYRGA G ++VYD+T + ++N++  WL +     + N   +L+GNK DL 
Sbjct: 89  QGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE 148
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ V+YE AK FA+E G+ F+E SAK   NVE AF+     I
Sbjct: 149 AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 191

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  167 bits (424), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 83/170 (48%), Positives = 114/170 (67%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG +G GKSCLL +F ++ +      TIGV+F  R V   GKTVKLQIWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N++  WL +    AS N+  +L GNK DL
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDL 142
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
             ++ V++  A  FA E  + F+ETSA    NVE+AF+     I N++ S
Sbjct: 143 DPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDS 192

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  166 bits (420), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 85/177 (48%), Positives = 119/177 (67%), Gaps = 1/177 (0%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE-QDGKTVKLQIWDT 59
           DYLFK++LIGDSGVGKS LL RF  D +     STIGV+F  ++++ ++ K +K QIWDT
Sbjct: 5   DYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDT 64
Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
           AGQER+R ITS+YYRGA G ++VYD+T + SF N+++WL E+   A  N+  LLVGNK D
Sbjct: 65  AGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSD 124
Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNN 176
           L   +V++   A  +A +  + F+ETSA ++ NVE AF  +  +I N    + A  N
Sbjct: 125 LKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNVRQKKQATKN 181

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  164 bits (416), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  164 bits (416), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 128 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 164

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  164 bits (414), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 81/170 (47%), Positives = 113/170 (66%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG++G GKSCLL +F +  + D    TIGV+F  + +   GK VKLQIWDTA
Sbjct: 8   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 67
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N +  WL +    AS+N+  +L GNK DL
Sbjct: 68  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 127
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
              + V++  A  FA E  + F+ETSA    NVE+AF+     I N++ S
Sbjct: 128 DADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIES 177

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  164 bits (414), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 77/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  ++V  D  TVK +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T+QE+F   K W+ E+ R AS ++   L GNK DL +K
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANK 128
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           ++V YE A+A+AD+  + FMETSAK ++NV   F+A+
Sbjct: 129 RMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAI 165

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  163 bits (413), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  163 bits (413), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 78/161 (48%), Positives = 109/161 (67%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+   +
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  163 bits (413), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 78/161 (48%), Positives = 109/161 (67%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+   +
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  163 bits (413), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  163 bits (412), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 85/164 (51%), Positives = 108/164 (65%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  D +     STIGV+F  RT+E + K +K QIWDTA
Sbjct: 8   DYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTA 67
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G +IVYD++   S+ N   WL E+   A +NV   L+GNK DL
Sbjct: 68  GLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDL 127
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + AK FA E  + F ETSA +S NV++AF  +   I
Sbjct: 128 AHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAI 171

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  162 bits (411), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 108/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 106/157 (67%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T+ ++F   K W+ E+ R AS N+   L GNK DL  K
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 123
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+A+AD+  + FMETSAK ++NV + FMA+
Sbjct: 124 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 160

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  161 bits (408), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 77/157 (49%), Positives = 107/157 (68%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 125
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+
Sbjct: 126 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 162

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  160 bits (404), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 79/167 (47%), Positives = 111/167 (66%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG++G GKSCLL +F +  + D    TIGV+F  + +   GK VKLQIWDTA
Sbjct: 9   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 68
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N +  WL +    AS+N+  +L GNK DL
Sbjct: 69  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 128
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              + V++  A  FA E  + F+ETSA    +VE+AF+     I N+
Sbjct: 129 DADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKILNK 175

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  159 bits (401), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 75/157 (47%), Positives = 105/157 (66%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T+ ++F   K W+ E+ R AS N+   L GNK DL  K
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+A+AD+  + FMETSAK ++NV + FMA+
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  158 bits (400), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 75/157 (47%), Positives = 105/157 (66%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STI   F  +TV  D  TVK +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T+ ++F   K W+ E+ R AS N+   L GNK DL  K
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+A+AD+  + FMETSAK ++NV + FMA+
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 105/157 (66%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           + V ++ A+++AD+  + F ETSAK S NV + F A+
Sbjct: 128 RAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAI 164

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  158 bits (399), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/171 (45%), Positives = 115/171 (67%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           +++FK++LIG+SGVGK+ LL RF  + +     +TIGV+F  RTV      VK QIWDTA
Sbjct: 8   NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTA 67
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++V+D+T  +++  V++WL E+  +A   +  +LVGNK DL
Sbjct: 68  GLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDL 127
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           +  + V  E A+ FA+  G+ F+ETSA DS NVE AF  +  +I  +++ Q
Sbjct: 128 SQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 178

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  157 bits (398), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/171 (45%), Positives = 115/171 (67%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           +++FK++LIG+SGVGK+ LL RF  + +     +TIGV+F  RTV      VK QIWDTA
Sbjct: 23  NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTA 82
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++V+D+T  +++  V++WL E+  +A   +  +LVGNK DL
Sbjct: 83  GLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDL 142
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           +  + V  E A+ FA+  G+ F+ETSA DS NVE AF  +  +I  +++ Q
Sbjct: 143 SQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  157 bits (397), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 82/162 (50%), Positives = 109/162 (67%), Gaps = 2/162 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+L+IG+SGVGKS LLLRF DD++     +TIGVDFK++T+  DG   KL IWDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKCDLTD 122
           RFRT+T SYYRGA G+I+VYDVT +++F  +  WLNE++ Y + N +   LVGNK D  +
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN 135
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           ++V   E  K FA +    F+E SAK    V+ AF  +   I
Sbjct: 136 REVDRNEGLK-FARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  157 bits (396), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 78/167 (46%), Positives = 110/167 (65%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG++G GKSCLL +F +  + D    TIGV+F  + +   GK VKLQIWDTA
Sbjct: 6   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 65
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ERFR++T SYYRGA G ++VYD+T +E++N +  WL +    AS+N+  +L GNK DL
Sbjct: 66  GLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              + V++  A  FA E  + F+ETSA    +VE+AF+     I N+
Sbjct: 126 DADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKILNK 172

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  154 bits (388), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 77/179 (43%), Positives = 117/179 (65%), Gaps = 11/179 (6%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTV--------EQDGKTV 52
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V           GK  
Sbjct: 23  DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAF 82
Query: 53  K--LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
           K  LQ+WDTAGQERFR++T++++R A G ++++D+T Q+SF NV+ W++++   A  EN 
Sbjct: 83  KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 142
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L+GNK DL D++ V+   A+  AD+ GIP+ ETSA    NVE+A   +   I  RM
Sbjct: 143 DIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 201

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  152 bits (384), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/170 (43%), Positives = 110/170 (64%), Gaps = 5/170 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FK+++IGDS VGK+CL  RF    + D   +TIGVDF+ R V+ DG+ +K+Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 63  ERFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKCDL 120
           ERFR ++   YYR  H ++ VYD+T+  SF+++  W+ E  ++   N + ++LVGNKCDL
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 139
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAK---DSLNVEQAFMAMTADIKNR 167
                V  + A+ FAD   +P  ETSAK   D+ +VE  FM +   +K+ 
Sbjct: 140 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKSH 189

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  150 bits (380), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 78/172 (45%), Positives = 108/172 (62%), Gaps = 5/172 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD G GKS L+LRF  D +++   STIG  F  +T+  +  TVK +IWDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           + ++   YYRGA   IIV+DVT+Q SF   K+W+ E+    + N+   L GNK DL D +
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133
Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS-QPAMN 175
            V+ E A+ +A E G+ FMETSAK + NV++ F     +I  R+   QP  N
Sbjct: 134 KVTAEDAQTYAQENGLFFMETSAKTATNVKEIFY----EIARRLPRVQPTEN 181

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  149 bits (377), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 82/213 (38%), Positives = 130/213 (61%), Gaps = 19/213 (8%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD--------GKTV 52
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  D        GK  
Sbjct: 9   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAF 68
Query: 53  K--LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
           K  LQ+WDTAG ERFR++T++++R A G ++++D+T Q+SF NV+ W++++   A  EN 
Sbjct: 69  KVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 128
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           + +L+GNK DL D++ V+   A+  A++ GIP+ ETSA    NVE++   +   I  RM 
Sbjct: 129 DIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRM- 187
Query: 170 SQPAMNNARPPTV------QIKGQ-PVNQKASC 195
            +       P TV      ++ G+ P  +K +C
Sbjct: 188 EKCVEKTQVPDTVNGGNSGKLDGEKPAEKKCAC 220

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  149 bits (376), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 75/179 (41%), Positives = 117/179 (65%), Gaps = 11/179 (6%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD--------GKTV 52
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  D        GK  
Sbjct: 9   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAF 68
Query: 53  K--LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
           K  LQ+WDTAG ERFR++T++++R A G ++++D+T Q+SF NV+ W++++   A  EN 
Sbjct: 69  KVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 128
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L+GNK DL D++ V+   A+  A++ GIP+ ETSA    NVE++   +   I  RM
Sbjct: 129 DIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRM 187

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 68/161 (42%), Positives = 103/161 (63%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ L+GD+GVGKS ++ RF  D +  +   TIG  F  +TV    +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RF ++   YYRG+   +IVYD+T Q+SF  +K+W+ E+  +  EN+   + GNKCDL+D 
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + V  + AK +A+ IG   +ETSAK+++N+E+ F  ++  I
Sbjct: 144 REVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  148 bits (373), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/170 (42%), Positives = 107/170 (62%), Gaps = 5/170 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FK+++IGDS VGK+CL  RF    + D   +TIGVDF+ R V+ DG+ +K+Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 63  ERFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKCDL 120
           ERFR ++   YYR  H ++ VYD T+  SF+++  W+ E  ++   N + ++LVGNKCDL
Sbjct: 89  ERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 148
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAK---DSLNVEQAFMAMTADIKNR 167
                V  + A+ FAD    P  ETSAK   D+ +VE  F  +   +K+ 
Sbjct: 149 RSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKLKSH 198

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 70/179 (39%), Positives = 116/179 (64%), Gaps = 11/179 (6%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD----------GK 50
           DYL K L +GDSGVGK+ +L ++ D  +   +I+T+G+DF+ + V             G+
Sbjct: 9   DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQ 68
Query: 51  TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
            + LQ+WDTAG ERFR++T++++R A G ++++D+T+++SF NV+ W++++  +A SEN 
Sbjct: 69  RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP 128
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L GNK DL D++ V  E A+  A++ GIP+ ETSA +  N+  A   +   I  RM
Sbjct: 129 DIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRM 187

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 69/161 (42%), Positives = 105/161 (65%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ L+GD+GVGKS ++ RF +DS+  +   TIG  F  +TV+   +  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR +   YYRG+   IIVYD+T +E+F+ +K W+ E+ ++   ++   + GNKCDLTD 
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 125
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + V    AK +AD I   F+ETSAK+++N+ + F+ ++  I
Sbjct: 126 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  146 bits (369), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 75/198 (37%), Positives = 121/198 (61%), Gaps = 8/198 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +T++LQ+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 133
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQ 183
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A +    ++Q   + +R   + 
Sbjct: 134 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ---DRSREDMID 190
Query: 184 IK-----GQPVNQKASCC 196
           IK      QPV++    C
Sbjct: 191 IKLEKPQEQPVSEGGCSC 208

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 68/161 (42%), Positives = 104/161 (64%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ L+GD+GVGKS ++ RF +DS+  +   TIG  F  +TV+   +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR +   YYRG+   IIVYD+T +E+F+ +K W+ E+ ++   ++   + GNKCDLTD 
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + V    AK +AD I   F+ETSAK+++N+ + F+ ++  I
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 167

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 70/170 (41%), Positives = 111/170 (65%), Gaps = 6/170 (3%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++L GD+ VGKS  L+R   + + ++  +T+GVDF+++T+  DG+   LQ+WDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           RFR+I  SY+R A G++++YDVT ++SF N+++W++ I+  A E V  +LVGNK D+ D 
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 123 -----KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
                +K V     +  A   G  F ETSAKD  N+ +A + +  ++K R
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKR 198

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 74/178 (41%), Positives = 114/178 (64%), Gaps = 11/178 (6%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD--------GKTV 52
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  D        GK  
Sbjct: 9   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAF 68
Query: 53  K--LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
           K  LQ+WDTAG ERFR++T++++R A G ++ +D+T Q+SF NV+ W +++   A  EN 
Sbjct: 69  KVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENP 128
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + +L+GNK DL D++ V+   A+  A++ GIP+ ETSA    NVE++   +   I  R
Sbjct: 129 DIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKR 186

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 74/178 (41%), Positives = 114/178 (64%), Gaps = 11/178 (6%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD--------GKTV 52
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  D        GK  
Sbjct: 9   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAF 68
Query: 53  K--LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
           K  LQ+WDTAG ERFR++T++++R A G ++ +D+T Q+SF NV+ W +++   A  EN 
Sbjct: 69  KVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENP 128
Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + +L+GNK DL D++ V+   A+  A++ GIP+ ETSA    NVE++   +   I  R
Sbjct: 129 DIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKR 186

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  144 bits (364), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 69/159 (43%), Positives = 108/159 (67%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF+   +W++++      +V  +LVGNK DL+DK
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA 162
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A
Sbjct: 135 RQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA 173

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  144 bits (363), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 68/159 (42%), Positives = 106/159 (66%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +T++LQ+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA 162
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA 165

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  143 bits (360), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 69/159 (43%), Positives = 106/159 (66%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA 162
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A
Sbjct: 122 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA 160

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  142 bits (358), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 75/193 (38%), Positives = 120/193 (62%), Gaps = 8/193 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQ 183
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A +    ++Q   + +R   + 
Sbjct: 137 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ---DRSREDMID 193
Query: 184 IK-----GQPVNQ 191
           IK      QPV++
Sbjct: 194 IKLEKPQEQPVSE 206

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 72/182 (39%), Positives = 115/182 (63%), Gaps = 3/182 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQ 183
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A +    ++Q   + +R   + 
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ---DRSREDMID 183
Query: 184 IK 185
           IK
Sbjct: 184 IK 185

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  141 bits (356), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 66/154 (42%), Positives = 104/154 (67%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           + ++ E  +  A E+ + F+ETSAK   NV+Q F
Sbjct: 123 RQITIEEGEQRAKELSVMFIETSAKTGYNVKQLF 156

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  139 bits (351), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 66/167 (39%), Positives = 106/167 (63%), Gaps = 4/167 (2%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+G  F  + +   GK V L IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERF  +   YYR ++G I+VYD+TD++SF  VK W+ E+ +     +   +VGNK DL 
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ VS + A+++A+ +G     TSAK +  +E+ F+    D+  RM
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL----DLCKRM 167

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  137 bits (345), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 72/164 (43%), Positives = 109/164 (66%), Gaps = 11/164 (6%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-KTVKLQIWDTAG 61
           + K++++GDSGVGK+ L+ R+ +D Y   Y +TIG DF  + V  DG K   +Q+WDTAG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK------LLVG 115
           QERF+++  ++YRGA   ++VYDVT+  SF N+K W +E   +A  NVN       +++G
Sbjct: 68  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHA--NVNSPETFPFVILG 125
Query: 116 NKCDLTD-KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           NK D  + KK+VS ++A+  A  +G IP   TSAK+++NV+ AF
Sbjct: 126 NKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAF 169

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  136 bits (343), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 65/167 (38%), Positives = 105/167 (62%), Gaps = 4/167 (2%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+   F  + +   GK V L IWDTAG
Sbjct: 19  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 78
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERF  +   YYR ++G I+VYD+TD++SF  VK W+ E+ +     +   +VGNK DL 
Sbjct: 79  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 138
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ VS + A+++A+ +G     TSAK +  +E+ F+    D+  RM
Sbjct: 139 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL----DLCKRM 181

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 65/167 (38%), Positives = 105/167 (62%), Gaps = 4/167 (2%)
Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+   F  + +   GK V L IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERF  +   YYR ++G I+VYD+TD++SF  VK W+ E+ +     +   +VGNK DL 
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ VS + A+++A+ +G     TSAK +  +E+ F+    D+  RM
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL----DLCKRM 167

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  133 bits (335), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 66/154 (42%), Positives = 99/154 (64%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+ +G+  VGK+ ++ RF  D++ ++Y STIG+DF  +T+  D   V+LQ+WDTAGQE
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   I+VYD+T+++SF N  +W+ +I     ++V   LVGNK DL D 
Sbjct: 62  RFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 121
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           + V+YE     A E    F ETSAK   N++  F
Sbjct: 122 RKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLF 155

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  131 bits (330), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 69/160 (43%), Positives = 102/160 (63%), Gaps = 6/160 (3%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           LFK++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V +QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKC 118
           ERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA     E+   +++GNK 
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKT 130
Query: 119 DLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D+ +++ VS E A+A+  + G  P+ ETSAKDS NV  AF
Sbjct: 131 DIKERQ-VSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAF 169

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  131 bits (330), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 70/199 (35%), Positives = 112/199 (56%), Gaps = 4/199 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR 178
           DL +++V +         +  IP+ ETSAK+++NVEQAF  +  +   +       N   
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFP 187
Query: 179 PPTVQIKGQPVNQKASCCS 197
            P    K +     A  CS
Sbjct: 188 EPIKLDKNERAKASAESCS 206

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score =  130 bits (327), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 68/160 (42%), Positives = 103/160 (64%), Gaps = 6/160 (3%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           LFK++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V +QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKC 118
           ERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA     E+   +++GNK 
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 128
Query: 119 DLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D+++++ VS E A+A+  + G  P+ ETSAKD+ NV  AF
Sbjct: 129 DISERQ-VSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 167

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  130 bits (327), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 68/160 (42%), Positives = 103/160 (64%), Gaps = 6/160 (3%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           LFK++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V +QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA----SENVNKLLVGNKC 118
           ERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA     E+   +++GNK 
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126
Query: 119 DLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D+++++ VS E A+A+  + G  P+ ETSAKD+ NV  AF
Sbjct: 127 DISERQ-VSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 165

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 64/162 (39%), Positives = 103/162 (63%), Gaps = 4/162 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM 160
           DL +++V +         +  IP+ ETSAK+++NVEQAF  +
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 69/199 (34%), Positives = 110/199 (55%), Gaps = 4/199 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR 178
           D  +++V +         +  IP+ ETSAK+++NVEQAF  +  +   +       N   
Sbjct: 128 DFENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFP 187
Query: 179 PPTVQIKGQPVNQKASCCS 197
            P    K       A  CS
Sbjct: 188 EPIKLDKNDRAKASAESCS 206

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 69/160 (43%), Positives = 101/160 (63%), Gaps = 6/160 (3%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++L+GD GVGKS L+ R+  + +      TIGV+F  R +E DG+ V LQIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++ + +YRGA   ++ + V D++SF N+  W  E   YA     E+   +++GNK 
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 119 DLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D  D++V + E A+ +  E G  P++ETSAKD  NV  AF
Sbjct: 127 DKEDRQVTT-EEAQTWCMENGDYPYLETSAKDDTNVTVAF 165

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 65/163 (39%), Positives = 97/163 (59%), Gaps = 3/163 (1%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+G++ VGKS ++LRF  + + ++   TIG  F  + V  +  TVK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-- 122
           F ++   YYR A   ++VYDVT  +SF   + W+ E+   AS+++   LVGNK D     
Sbjct: 65  FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEG 124
Query: 123 -KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ V+ E  +  A+E G+ F ETSAK   NV   F+ +   I
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  127 bits (319), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 69/199 (34%), Positives = 110/199 (55%), Gaps = 4/199 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTAG 
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR 178
           DL +++V +         +  IP+ ETSAK+++NVEQAF  +  +   +       N   
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFP 187
Query: 179 PPTVQIKGQPVNQKASCCS 197
            P    K       A  CS
Sbjct: 188 EPIKLDKNDRAKASAESCS 206

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score =  117 bits (294), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 66/166 (39%), Positives = 99/166 (59%), Gaps = 2/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 62
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  AD+  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score =  117 bits (292), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 99/166 (59%), Gaps = 2/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 72
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 132
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 133 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR 178

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score =  116 bits (290), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 99/166 (59%), Gaps = 2/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 76
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 136
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 137 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR 182

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  116 bits (290), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 99/166 (59%), Gaps = 2/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAGQ
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQ 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 125 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR 170

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  116 bits (290), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 57/153 (37%), Positives = 88/153 (57%), Gaps = 1/153 (0%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G+  VGKS ++ R+    +   Y  TIGVDF  R ++ + + V+L +WDTAGQE 
Sbjct: 7   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 66
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           F  IT +YYRGA   ++V+  TD+ESF  +  W  ++      ++   LV NK DL D  
Sbjct: 67  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDS 125
Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
            +  E A+  A  + + F  TS K+ LNV + F
Sbjct: 126 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVF 158

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 59/171 (34%), Positives = 103/171 (60%), Gaps = 3/171 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 65
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN--VNKLLVGNKCDL 120
           E +  I  +Y+R   G ++V+ +T+ ESF    ++  +I R  +E   +  L+VGNK DL
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 125
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
            +++ V  E A++ A+E G+ ++ETSAK   NV++ F  +  +I+ +  S+
Sbjct: 126 EERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTKKMSE 176

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score =  114 bits (285), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 59/171 (34%), Positives = 103/171 (60%), Gaps = 3/171 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 61
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN--VNKLLVGNKCDL 120
           E +  I  +Y+R   G ++V+ +T+ ESF    ++  +I R  +E   +  L+VGNK DL
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 121
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
            +++ V  E A++ A+E G+ ++ETSAK   NV++ F  +  +I+ +  S+
Sbjct: 122 EERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTKKMSE 172

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score =  113 bits (282), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 98/166 (59%), Gaps = 2/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAG 
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGL 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 125 DKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR 170

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAG 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score =  110 bits (275), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 94/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNKCDL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+  
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 94/163 (57%), Gaps = 3/163 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    ++D Y  TI   ++ + VE D +   L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 123 KKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQAFMAMTADI 164
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 93/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+  
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 95/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 122
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 123 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 177
Query: 180 PTV 182
           P V
Sbjct: 178 PEV 180

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 95/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 95/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 134
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 135 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 189
Query: 180 PTV 182
           P V
Sbjct: 190 PEV 192

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 95/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score =  103 bits (257), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 94/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y+ T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score =  103 bits (257), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 94/163 (57%), Gaps = 3/163 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI   ++ + VE D +   L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 123 KKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQAFMAMTADI 164
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score =  103 bits (256), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 94/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II +DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAXPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score =  102 bits (255), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 58/184 (31%), Positives = 95/184 (51%), Gaps = 12/184 (6%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP-----AMNNAR 178
           KV +   +  F  +  + + + SAK + N E+ F+ +      ++   P     AM    
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLA----RKLIGDPNLEFVAMPCLA 183
Query: 179 PPTV 182
           PP V
Sbjct: 184 PPEV 187

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/183 (31%), Positives = 95/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           ++  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score =  102 bits (254), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 97/188 (51%), Gaps = 10/188 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   YI+TIGV+    +   +   +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ ++
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 131
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN----RMASQPAMNNARP 179
           KV +      F  +  + + + SAK + N E+ F+ +   +         + PA+    P
Sbjct: 132 KVKA--KTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQLEFVASPAL---AP 186
Query: 180 PTVQIKGQ 187
           P VQ+  Q
Sbjct: 187 PEVQVDEQ 194

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score =  102 bits (254), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 88/161 (54%), Gaps = 3/161 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           KV +   +  F  +  + + + SAK + N E+ F+ +   +
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 94/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R         Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 134
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 135 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 189
Query: 180 PTV 182
           P V
Sbjct: 190 PEV 192

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 87/161 (54%), Gaps = 3/161 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y+ T+GV+        +   +K  +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           KV +   +  F  +  + + + SAK + N E+ F+ +   +
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 94/163 (57%), Gaps = 3/163 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI   ++ + VE D +   L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +++V  +LVGNKCDL D
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 122
Query: 123 KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADI 164
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I
Sbjct: 123 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 94/163 (57%), Gaps = 3/163 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI   ++ + VE D +   L+I DTAG E
Sbjct: 6   YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 64
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +++V  +LVGNKCDL D
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 124
Query: 123 KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADI 164
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I
Sbjct: 125 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 167

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 57/183 (31%), Positives = 94/183 (51%), Gaps = 10/183 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 129
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM----AMTADIKNRMASQPAMNNARP 179
           KV +   +  F  +  + + + SAK + N E+ F+     +  D      + PA+    P
Sbjct: 130 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPAL---AP 184
Query: 180 PTV 182
           P V
Sbjct: 185 PEV 187

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 87/161 (54%), Gaps = 3/161 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 131
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           KV +   +  F  +  + + + SAK + N E+ F+ +   +
Sbjct: 132 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 87/161 (54%), Gaps = 3/161 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ D+
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDIKDR 125
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           KV +   +  F  +  + + + SAK + N E+ F+ +   +
Sbjct: 126 KVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 164

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 54/171 (31%), Positives = 91/171 (53%), Gaps = 7/171 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   YI+TIGV+    +   +   +K  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ ++
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 123
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAM 174
           KV +      F  +  + + + SAK + N E+ F+ +      ++A  P +
Sbjct: 124 KVKA--KTITFHRKKNLQYYDISAKSNYNFEKPFLWLA----RKLAGNPQL 168

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 54/171 (31%), Positives = 91/171 (53%), Gaps = 7/171 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   YI+TIGV+    +   +   +K  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+ ++
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKER 124
Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAM 174
           KV +      F  +  + + + SAK + N E+ F+ +      ++A  P +
Sbjct: 125 KVKA--KTITFHRKKNLQYYDISAKSNYNFEKPFLWLA----RKLAGNPQL 169

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 64/178 (35%), Positives = 100/178 (56%), Gaps = 8/178 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+     Q  +    PP
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR-----QHKLRKLNPP 174

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEESYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 9   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 67
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 127
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 128 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 171

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 9   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 67
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 127
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 128 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 171

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 96/164 (58%), Gaps = 3/164 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+ 
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 96/164 (58%), Gaps = 3/164 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+ 
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 11  YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 69
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 70  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 129
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 130 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 173

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGN+CDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  +I   ++ + V  DG+T  L I DTAGQE
Sbjct: 10  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQE 68
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 69  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 128
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 129 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 172

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  +I   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGK+ L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKNALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D +  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEFDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + +++ Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVEKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DT GQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTGGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DT GQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTTGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG+E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGKE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  + +  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREFRQH 166

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 94.0 bits (232), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
               +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 94.0 bits (232), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 55/165 (33%), Positives = 85/165 (51%), Gaps = 4/165 (2%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK-TVKLQIWDTAGQ 62
            K++++GD   GK+ L   FA +++   Y  TIG+DF +R +   G   V LQIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCD 119
                +   Y  GA G+++VYD+T+ +SF N++ W   + + + E+  +    LVGNK D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126
Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           L   + +  E    F  E G      SAK   +V   F  + A+I
Sbjct: 127 LEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEI 171

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 94.0 bits (232), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGEICLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 93.2 bits (230), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 63/205 (30%), Positives = 102/205 (49%), Gaps = 23/205 (11%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             K + +GD  VGK+C+L+ +  + +   YI T+  +F    V  DG+ V L +WDTAGQ
Sbjct: 9   FIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQ 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    YRGA   ++ + +  + S+ NV K+W+ E+ R+A  NV  +LVG K DL 
Sbjct: 68  EDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLR 126
Query: 122 DKK--------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           D K        V++    +    +IG   ++E S+K   NV+  F     D   ++  QP
Sbjct: 127 DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF-----DTAIKVVLQP 181
Query: 173 AMNNARPPTVQIKGQPVNQKASCCS 197
                 P   ++  +  N + S CS
Sbjct: 182 ------PRRKEVPRRRKNHRRSGCS 200

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 93.2 bits (230), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 9   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLE 67
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 127
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 128 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 171

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 93.2 bits (230), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 55/143 (38%), Positives = 83/143 (58%), Gaps = 2/143 (1%)
Query: 16  KSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG 75
           KS L ++F   ++++ Y  TI  DF  + +E D     L+I DTAG E+F ++   Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 76  AHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAF 134
             G I+VY + +Q+SF ++K   ++I R    E V  +LVGNK DL  ++ VS    +A 
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRAL 134
Query: 135 ADEIGIPFMETSAKDSLNVEQAF 157
           A+E G PFMETSAK    V++ F
Sbjct: 135 AEEWGCPFMETSAKSKTMVDELF 157

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 93.2 bits (230), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGGE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 93.2 bits (230), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGVE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 93/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGHE 80
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNKCDL  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 139
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+  
Sbjct: 140 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 184

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETXLLDILDTAGGE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 3/163 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 80
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   S++V  +LVGNKCDL  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP- 139
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            + V  + A   A   GIPF+ETSAK    VE AF  +  +I+
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIR 182

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGIE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNKCDL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 96/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 126
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 186
Query: 170 SQ 171
            +
Sbjct: 187 KK 188

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 96/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 124
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 184
Query: 170 SQ 171
            +
Sbjct: 185 KK 186

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 96/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 68
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 127
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 187
Query: 170 SQ 171
            +
Sbjct: 188 KK 189

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 91.3 bits (225), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 96/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 126
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 186
Query: 170 SQ 171
            +
Sbjct: 187 KK 188

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 91.3 bits (225), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 56/169 (33%), Positives = 87/169 (51%), Gaps = 14/169 (8%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             K + +GD  VGK+C+L+ +  +++   Y+ T+  +F    V  DG TV L +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQ 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    YRGA   I+ + +  + S+ NV K+W+ E+  YA   V  +LVG K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLR 123
Query: 122 DKK----------VVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMA 159
           D K           ++    +     IG P ++E S+K   NV+  F A
Sbjct: 124 DDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDA 172

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 55/169 (32%), Positives = 86/169 (50%), Gaps = 3/169 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +++ + G  GVGKS L+LRF   ++ +SYI T+   ++ + +  D     LQI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLT 121
           +F  +        H  I+VY +T ++S   +K    +I       E++  +LVGNKCD +
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
             + V    A+A A      FMETSAK + NV++ F  +    K R  S
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 171

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 90.5 bits (223), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 59/182 (32%), Positives = 91/182 (50%), Gaps = 19/182 (10%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             K + +GD  VGK+CLL+ +  +++   Y+ T+  +F    V  +G TV L +WDTAGQ
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLGLWDTAGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    YRGA   I+ + +  + S+ NV K+W+ E+  YA   V  +LVG K DL 
Sbjct: 67  EDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLR 125
Query: 122 DKK----------VVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMTADIKNRMAS 170
           D K           ++    +     IG P ++E S+K   NV+  F     D   R+  
Sbjct: 126 DDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF-----DAAIRVVL 180
Query: 171 QP 172
           QP
Sbjct: 181 QP 182

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 90.5 bits (223), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 93/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 5   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+  
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 90.5 bits (223), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 93/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 5   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV-IDGETCLLDILDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+  
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 90.5 bits (223), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 90/167 (53%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++L+GD G GK+ LL+ FAD ++ +SY  T+   + +  ++  GK V L IWDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMV-NLQVKGKPVHLHIWDTAGQDD 94
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +   +Y  A  +++ +DVT   SF+N+  +W  E++ +  + V  ++VG K DL   
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKD 153
Query: 124 K------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           K             V+Y   +  A  +G + ++E SA+   NV   F
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 90.1 bits (222), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 59/182 (32%), Positives = 93/182 (51%), Gaps = 19/182 (10%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             K + +GD  VGK+C+L+ +  +++   Y+ T+  +F    V  DG TV L +WDTAGQ
Sbjct: 6   FIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQ 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    YRGA   ++ + +  + S+ N+ K+WL E+  YA   +  +LVG K DL 
Sbjct: 65  EDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYA-PGIPIVLVGTKLDLR 123
Query: 122 DKK--------VVSYETAKA--FADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
           D K          S  TA+       IG + ++E S+K   NV+  F     D   R+A 
Sbjct: 124 DDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF-----DTAIRVAL 178
Query: 171 QP 172
           +P
Sbjct: 179 RP 180

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 90.1 bits (222), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 69
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 128
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 129 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 184

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 89.7 bits (221), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 126
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 182

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 89.7 bits (221), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 125
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 181

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 81/152 (53%), Gaps = 4/152 (2%)
Query: 16  KSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR 74
           KS L ++F    ++  Y  TI   + KI +V  DG   +L I DTAGQE F  +   Y R
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSYTKICSV--DGIPARLDILDTAGQEEFGAMREQYMR 79
Query: 75  GAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKA 133
             HG ++V+ + D++SFN V +   +I R    ++   +LVGNK DL  ++ V    A A
Sbjct: 80  AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASA 139
Query: 134 FADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           F     + + E SAK  LNV++AF  +   ++
Sbjct: 140 FGASHHVAYFEASAKLRLNVDEAFEQLVRAVR 171

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 94/176 (53%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 125
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 181

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 63/166 (37%), Positives = 94/166 (56%), Gaps = 3/166 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++GD GVGKS L ++F    ++D Y  TI   ++  T E D +   L + DTAGQE
Sbjct: 19  YKLVVVGDGGVGKSALTIQFFQKIFVDEYDPTIEDSYRKHT-EIDNQWAILDVLDTAGQE 77
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            F  +   Y R   G +IVY VTD+ SF +V ++   I R    E+   +LV NK DL  
Sbjct: 78  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 137
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKD-SLNVEQAFMAMTADIKNR 167
            + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 138 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 63/166 (37%), Positives = 94/166 (56%), Gaps = 3/166 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++GD GVGKS L ++F    ++D Y  TI  D  ++  E D +   L + DTAGQE
Sbjct: 19  YKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQE 77
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
            F  +   Y R   G +IVY VTD+ SF +V ++   I R    E+   +LV NK DL  
Sbjct: 78  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 137
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKD-SLNVEQAFMAMTADIKNR 167
            + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 138 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 82/165 (49%), Gaps = 1/165 (0%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +K+ LIGD GVGK+  + R  D  +  +Y +T+G V+  +  ++  G  +K  +WDTAGQ
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           E+   +   YY GA G I+ +DVT + +  N+ +W+ E           ++  NK D+ +
Sbjct: 72  EKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           ++ +S +            + E SAK + N    F+ +      R
Sbjct: 132 RQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGR 176

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 57/198 (28%), Positives = 94/198 (47%), Gaps = 40/198 (20%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE----------------- 46
           +K +L+G+S VGKS ++LR   D++ ++  +TIG  F    V                  
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67
Query: 47  --------------------QDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT 86
                               ++   +K  IWDTAGQER+ +I   YYRGA   I+V+D++
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDIS 127
Query: 87  DQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETS 146
           +  + +  K W+N++    S N   +LV NK D    +V   E  K +A +  + F++TS
Sbjct: 128 NSNTLDRAKTWVNQLK--ISSNYIIILVANKIDKNKFQVDILEVQK-YAQDNNLLFIQTS 184
Query: 147 AKDSLNVEQAFMAMTADI 164
           AK   N++  F  +  +I
Sbjct: 185 AKTGTNIKNIFYMLAEEI 202

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 3/165 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D    TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA 122
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           + V S + A+  A   GIP++ETSAK    VE AF  +  +I+  
Sbjct: 123 RTVESRQ-AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 55/148 (37%), Positives = 86/148 (58%), Gaps = 4/148 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           K+ ++G   VGKS L ++F +  ++DSY  TI   F K+ TV  +G+   LQ+ DTAGQ+
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV--NGQEYHLQLVDTAGQD 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTD 122
            +     +Y    +G I+VY VT  +SF  +K    ++ D      +  +LVGNK DL  
Sbjct: 66  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 125
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDS 150
           ++V+SYE  KA A+     F+E+SAK++
Sbjct: 126 ERVISYEEGKALAESWNAAFLESSAKEN 153

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 55/147 (37%), Positives = 85/147 (57%), Gaps = 4/147 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           K+ ++G   VGKS L ++F +  ++DSY  TI   F K+ TV  +G+   LQ+ DTAGQ+
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV--NGQEYHLQLVDTAGQD 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTD 122
            +     +Y    +G I+VY VT  +SF  +K    ++ D      +  +LVGNK DL  
Sbjct: 66  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 125
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKD 149
           ++V+SYE  KA A+     F+E+SAK+
Sbjct: 126 ERVISYEEGKALAESWNAAFLESSAKE 152

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 95/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 124
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 184
Query: 170 SQ 171
            +
Sbjct: 185 KK 186

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 87.8 bits (216), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 55/182 (30%), Positives = 93/182 (51%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y     I++ + V   +S  N+ ++W+ E+  +   NV  +LV NK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSD 144
Query: 124 KVVSYETAKAFADEI-------------GIPFMETSAKDSLNVEQAFMAMT-ADIKNRMA 169
           + V  E A+   + +                ++E SAK    V + F   T A ++ R  
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKRYG 204
Query: 170 SQ 171
           SQ
Sbjct: 205 SQ 206

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 87.8 bits (216), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 95/182 (52%), Gaps = 17/182 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 124
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++ R  
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRG 184
Query: 170 SQ 171
            +
Sbjct: 185 KK 186

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 55/148 (37%), Positives = 86/148 (58%), Gaps = 4/148 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           K+ ++G   VGKS L ++F +  ++DSY  TI   F K+ TV  +G+   LQ+ DTAGQ+
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV--NGQEYHLQLVDTAGQD 60
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTD 122
            +     +Y    +G I+VY VT  +SF  +K    ++ D      +  +LVGNK DL  
Sbjct: 61  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 120
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDS 150
           ++V+SYE  KA A+     F+E+SAK++
Sbjct: 121 ERVISYEEGKALAESWNAAFLESSAKEN 148

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 57/176 (32%), Positives = 92/176 (52%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D +   Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +       Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 124
Query: 124 KVVSYETAKA------------FADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
           +  + E AK              A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 125 EHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 87.0 bits (214), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 54/176 (30%), Positives = 90/176 (51%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ I  +E DGK V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQD 144
Query: 124 KVVSYETAKAFADEI-------------GIPFMETSAKDSLNVEQAF-MAMTADIK 165
           +    E AK   + +                ++E SAK    V + F MA  A ++
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGLQ 200

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 87.0 bits (214), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 62/166 (37%), Positives = 93/166 (56%), Gaps = 3/166 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++GD GVGKS L ++F    ++  Y  TI  D  ++  E D +   L + DTAGQE
Sbjct: 19  YKLVVVGDGGVGKSALTIQFFQKIFVPEYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQE 77
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            F  +   Y R   G +IVY VTD+ SF +V ++   I R    E+   +LV NK DL  
Sbjct: 78  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 137
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKD-SLNVEQAFMAMTADIKNR 167
            + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 138 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 86.7 bits (213), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 54/176 (30%), Positives = 90/176 (51%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ I  +E DGK V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFXP-NVPIILVGNKKDLRQD 144
Query: 124 KVVSYETAKAFADEI-------------GIPFMETSAKDSLNVEQAF-MAMTADIK 165
           +    E AK   + +                ++E SAK    V + F MA  A ++
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGLQ 200

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 86.7 bits (213), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 62/166 (37%), Positives = 93/166 (56%), Gaps = 3/166 (1%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++GD GVGKS L ++F    ++  Y  TI  D  ++  E D +   L + DTAGQE
Sbjct: 14  YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQE 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            F  +   Y R   G +IVY VTD+ SF +V ++   I R    E+   +LV NK DL  
Sbjct: 73  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 132
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKD-SLNVEQAFMAMTADIKNR 167
            + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 133 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 178

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 91/172 (52%), Gaps = 10/172 (5%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL + G +GVGKS L++RF    ++  Y  T+   ++ +    D + V ++I DTAGQE 
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDD-EVVSMEILDTAGQED 88
Query: 65  FRTIT-SSYYRGAHGIIIVYDVTDQESFNNV---KQWLNEIDRYASENVNKLLVGNKCDL 120
             TI    + R   G ++VYD+TD+ SF  V   K  L+EI +   +NV  +LVGNK DL
Sbjct: 89  --TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK--PKNVTLILVGNKADL 144
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSA-KDSLNVEQAFMAMTADIKNRMASQ 171
              + VS E  +  A E+   F E SA     N+ + F  +  +++ R   Q
Sbjct: 145 DHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRRMVQ 196

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 55/176 (31%), Positives = 93/176 (52%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 124
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 53/171 (30%), Positives = 89/171 (52%), Gaps = 16/171 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 122
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT 161
                      ++ V  E  +  A+ IG   +ME SAK    V + F   T
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMAT 173

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/169 (31%), Positives = 87/169 (51%), Gaps = 16/169 (9%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           + K +++GD  VGK+CLL+ +A+D++ + Y+ T+  D    +V   GK   L ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQ 76
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    Y      +I + V +  SF NVK +W+ E+  YA  NV  LL+G + DL 
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLR 135
Query: 122 D------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D            +K +  E  +  A EIG   ++E SA     ++  F
Sbjct: 136 DDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 55/176 (31%), Positives = 93/176 (52%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 122
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 178

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 81/152 (53%), Gaps = 2/152 (1%)
Query: 16  KSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG 75
           KS L ++F    ++  Y  TI   +  + V  D +  +L I DTAGQE F  +   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCV-IDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 76  AHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAF 134
             G ++V+ VTD+ SF  + ++  +I R    +    +L+GNK DL  ++ V+ E  +  
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 135 ADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           A ++ + +ME SAK  +NV+QAF  +   I+ 
Sbjct: 137 ARQLKVTYMEASAKIRMNVDQAFHELVRVIRK 168

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 64
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 123
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 124 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 148
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 81
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 82  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 140
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 141 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 188

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 84.3 bits (207), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 125
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 126 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 173

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 84.3 bits (207), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 90/178 (50%), Gaps = 17/178 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ I  +E DGK V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQD 124
Query: 124 KVVSYETAKAFADEI-------------GIPFMETSAKDSLNVEQAF-MAMTADIKNR 167
           +    E AK   + +                ++E SAK    V + F MA  A ++ R
Sbjct: 125 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGLQVR 182

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 69
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 128
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 129 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 176

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 84.0 bits (206), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 54/148 (36%), Positives = 85/148 (57%), Gaps = 4/148 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           K+ ++G   VGKS L ++F +  ++DS   TI   F K+ TV  +G+   LQ+ DTAGQ+
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTFTKLITV--NGQEYHLQLVDTAGQD 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTD 122
            +     +Y    +G I+VY VT  +SF  +K    ++ D      +  +LVGNK DL  
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDS 150
           ++V+SYE  KA A+     F+E+SAK++
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKEN 151

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 83.6 bits (205), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   +   LLVG K DL D
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRD 122
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 83.6 bits (205), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 83/167 (49%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y      +I + +    SF NV+ +W  E+ R+   +   LLVG K DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRDD 122
Query: 124 K------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 123 KDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 169

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 83.6 bits (205), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQE 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   +   LLVG K DL D
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRD 122
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 83.6 bits (205), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 83/167 (49%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGQED 73
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D 
Sbjct: 74  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDD 132
Query: 124 K------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 133 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 179

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 54/176 (30%), Positives = 92/176 (52%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  + D + + Y+ T+  ++ +  +E DGK V+L +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLED 68
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + +   +S  N+ ++W  E+  +   NV  +LVGNK DL + 
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRND 127
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIK 165
                      ++ V  E  +  A+ IG   +ME SAK    V + F MA  A ++
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 183

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 81/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  ++    YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 148
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGLE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGLE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 93/171 (54%), Gaps = 16/171 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+  +   + + Y+ T+  ++ +  VE DG+ V+L +WDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENY-VADVEVDGRRVELALWDTAGQED 70
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y  ++ ++I + +   +S  NV++ W+ E+  +  + V  +LVG K DL + 
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFC-QGVPIILVGCKVDLRND 129
Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT 161
                      ++ V+ +  ++ AD+IG   + E SAK    V + F A T
Sbjct: 130 PQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFEAAT 180

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG E
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGLWDTAGLE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 66  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 124
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 125 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 172

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 81/168 (48%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 89
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+ R+   N   +LVG K DL D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRD 148
Query: 123 KK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 84/169 (49%), Gaps = 16/169 (9%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGL 213
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    Y      +I + +    SF++V+ +W  E+ R+   N   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLR 272
Query: 122 DKK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 84/169 (49%), Gaps = 16/169 (9%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGL 213
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    Y      +I + +    SF++V+ +W  E+ R+   N   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLR 272
Query: 122 DKK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 84/169 (49%), Gaps = 16/169 (9%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  DGK V L +WDTAG 
Sbjct: 155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGL 213
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLT 121
           E +  +    Y      +I + +    SF++V+ +W  E+ R+   N   +LVG K DL 
Sbjct: 214 EDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLR 272
Query: 122 DKK------------VVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           D K             ++Y    A A EIG + ++E SA     ++  F
Sbjct: 273 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 84/157 (53%), Gaps = 5/157 (3%)
Query: 16  KSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG 75
           KS L+LRF   ++ D+YI TI   ++ + +  D     LQI DT G  +F  +       
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 76  AHGIIIVYDVTDQESFNNVKQWLNEIDRY--ASENVNKLLVGNKCDLTDKKVVSYETAKA 133
            H  I+V+ VT ++S   +      I +   + E++  +LVGNKCD T ++V + E A+A
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTRE-AQA 138
Query: 134 FADEIGIPFMETSAKDSLNVEQAFMA-MTADIKNRMA 169
            A E    FMETSAK + NV++ F   +T + +  M+
Sbjct: 139 VAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMS 175

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/189 (28%), Positives = 87/189 (46%), Gaps = 19/189 (10%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  ++    V  D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDSKPVNLGLWDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    S+ NV+ +W  E+ R+   +   +LVG K DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRD 121
Query: 123 KK------------VVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
            K             ++Y    A A EI  + ++E SA     ++  F      I+  + 
Sbjct: 122 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF---DEAIRAVLC 178
Query: 170 SQPAMNNAR 178
            QP     R
Sbjct: 179 PQPTRQQKR 187

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 58/187 (31%), Positives = 88/187 (47%), Gaps = 35/187 (18%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64
Query: 64  RF---------RTITSSY-----YRG-----AHGIIIVYDVTDQESFNNVK-QWLNEIDR 103
            +         +T+  +Y      RG     A   +I + +    SF NV+ +W  E+ R
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEV-R 123
Query: 104 YASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIG-IPFMETSAKDS 150
           +   N   +LVG K DL D K             ++Y    A A EIG + ++E SA   
Sbjct: 124 HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 183
Query: 151 LNVEQAF 157
             ++  F
Sbjct: 184 RGLKTVF 190

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 48/162 (29%), Positives = 85/162 (52%), Gaps = 4/162 (2%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF-KIRTVEQDGKTVKLQIWDTAGQE 63
           K++++G   VGK+ L  +F +  + + Y  T+   + KI T+ +D     L + DTAGQ+
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKD--EFHLHLVDTAGQD 83
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTD 122
            +  +  S+  G HG ++VY VT   SF  ++    ++   +    V  +LVGNK DL+ 
Sbjct: 84  EYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSP 143
Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           ++ V     K  A+  G  FME+SA+++   +  F  +  +I
Sbjct: 144 EREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 56/176 (31%), Positives = 87/176 (49%), Gaps = 17/176 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +L+GD  VGK+ L++ +  + Y   YI T   +F    V  DG+ V+LQ+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFS-AVVSVDGRPVRLQLCDTAGQDE 80
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD- 122
           F  +    Y      ++ + V    SF NV ++W+ EI R        +LVG + DL + 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEI-RCHCPKAPIILVGTQSDLRED 139
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF-MAMTADIK 165
                      +K V  E AK  A+EI    ++E SA    N+++ F  A+ A I+
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQ 195

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 80/168 (47%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  D K V L +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQE 68
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    S+ NV+ +W  E+ R+   +   +LVG K DL D
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRD 127
Query: 123 KK------------VVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EI  + ++E SA     ++  F
Sbjct: 128 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 175

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 91/178 (51%), Gaps = 17/178 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 30  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPY 88
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  EI  +   N   LLVG K DL TD
Sbjct: 89  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTD 147
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSAKDSLN-VEQAFMAMTADIKNR 167
                      +  VSY+     A +IG   ++E SA  S N V   F   T    N+
Sbjct: 148 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 205

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 91/178 (51%), Gaps = 17/178 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 25  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPY 83
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  EI  +   N   LLVG K DL TD
Sbjct: 84  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTD 142
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSAKDSLN-VEQAFMAMTADIKNR 167
                      +  VSY+     A +IG   ++E SA  S N V   F   T    N+
Sbjct: 143 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 200

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 80/168 (47%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  D K V L +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQE 69
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    S+ NV+ +W  E+ R+   +   +LVG K DL D
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRD 128
Query: 123 KK------------VVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
            K             ++Y    A A EI  + ++E SA     ++  F
Sbjct: 129 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 176

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 91/178 (51%), Gaps = 17/178 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPY 67
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  ++I +D++  E+ ++V K+W  EI  +   N   LLVG K DL TD
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTD 126
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSAKDSLN-VEQAFMAMTADIKNR 167
                      +  VSY+     A +IG   ++E SA  S N V   F   T    N+
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 184

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 124
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 171

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 64
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 65  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 123
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 124 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 170

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 73.2 bits (178), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 73
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 74  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 132
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 133 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 179

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 124
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 125 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 172

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 66
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 67  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 125
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 126 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 172

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVF 169

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 128
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 176

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 53/158 (33%), Positives = 82/158 (51%), Gaps = 4/158 (2%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L++++L+GD GVGK+ L   FA     D +   +G D   RT+  DG+   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEA 62
Query: 63  ERFRTITS--SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCD 119
           E+     S  S  +G    +IVY + D+ SF +  +   ++ R + +++V  +LVGNK D
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122
Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           L   + VS E  +A A      F+ETSA    NV + F
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF 160

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVF 169

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 67
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 68  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 126
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 127 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 173

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 84/167 (50%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 65
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 66  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 124
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 125 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 171

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 128
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 176

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 90/175 (51%), Gaps = 9/175 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFA--DDSYLDSYISTIGVDFKIRTVEQDGKT---VKLQIWD 58
           ++++LIG+ GVGKS L   FA   DS +DS    +G D   RT+  DG++   + L +W+
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDS-MDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65
Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNK 117
             G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVGNK
Sbjct: 66  NKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R  S+ 
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 178

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 90/175 (51%), Gaps = 9/175 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFA--DDSYLDSYISTIGVDFKIRTVEQDGKT---VKLQIWD 58
           ++++LIG+ GVGKS L   FA   DS +DS    +G D   RT+  DG++   + L +W+
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDS-MDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65
Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNK 117
             G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVGNK
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R  S+ 
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 178

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L + DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +     Y+ T+  ++ + TV   G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 121
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 83/167 (49%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+  +  ++ + TV   G+   L ++DTAGQE 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAV-TVMIGGEPYTLGLFDTAGQED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAG E
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLE 66
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRD 125
Query: 123 ------------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                       +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 126 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 173

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 83/167 (49%), Gaps = 16/167 (9%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  + +   Y+ T+  ++ + TV   G+   L ++DTAG E 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLED 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      ++ + V    SF NVK+ W+ EI  +  +    LLVG + DL D 
Sbjct: 64  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDLRDD 122
Query: 123 -----------KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAF 157
                      +K ++ ETA+  A ++  + ++E SA     ++  F
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 70.1 bits (170), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 90/175 (51%), Gaps = 9/175 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFA--DDSYLDSYISTIGVDFKIRTVEQDGKT---VKLQIWD 58
           ++++LIG+ GVGKS L   FA   DS +DS    +G D   RT+  DG++   + L +W+
Sbjct: 38  YRVVLIGEQGVGKSTLANIFAGVHDS-MDSDCEVLGEDTYERTLMVDGESATIILLDMWE 96
Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNK 117
             G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVGNK
Sbjct: 97  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 154
Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R  S+ 
Sbjct: 155 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 209

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 70.1 bits (170), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 83/157 (52%), Gaps = 16/157 (10%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++    +E + + V+L +WDT+G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSPY 71
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  +++ +D++  E+ ++ +K+W  EI  Y   +   LL+G K DL TD
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTD 130
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSA 147
                      +  +SYE   A A ++G   ++E SA
Sbjct: 131 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA 167

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 83/157 (52%), Gaps = 16/157 (10%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++    +E + + V+L +WDT+G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSPY 70
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  +++ +D++  E+ ++ +K+W  EI  Y   +   LL+G K DL TD
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTD 129
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSA 147
                      +  +SYE   A A ++G   ++E SA
Sbjct: 130 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA 166

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 53/170 (31%), Positives = 88/170 (51%), Gaps = 9/170 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFA--DDSYLDSYISTIGVDFKIRTVEQDGKT---VKLQIWD 58
           ++++LIG+ GVGKS L   FA   DS +DS    +G D   RT+  DG++   + L +W+
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDS-MDSDCEVLGEDTYERTLMVDGESATIILLDMWE 65
Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNK 117
             G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVGNK
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R
Sbjct: 124 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR 173

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 83/157 (52%), Gaps = 16/157 (10%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++    +E + + V+L +WDT+G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSPY 87
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDL-TD 122
           +  +    Y  +  +++ +D++  E+ ++ +K+W  EI  Y   +   LL+G K DL TD
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTD 146
Query: 123 -----------KKVVSYETAKAFADEIGIP-FMETSA 147
                      +  +SYE   A A ++G   ++E SA
Sbjct: 147 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA 183

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/118 (31%), Positives = 65/118 (55%), Gaps = 3/118 (2%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++GD  VGK+CLLL F+      +Y+ T+  +F    ++   +   L +WDTAGQE
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQE 82
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDL 120
            +  +    Y  +  +++ + V ++ SF+N+  +W  EI  Y  +    +LVG K DL
Sbjct: 83  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDL 139

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 83/160 (51%), Gaps = 10/160 (6%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++GD  VGK+CLLL F+      +Y+ T+  +F    ++   +   L +WDTAGQE
Sbjct: 23  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQE 81
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y  +  +++ + V ++ SF+N+  +W  EI  Y  +    +LVG K DL  
Sbjct: 82  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDL-- 138
Query: 123 KKVVSYETAKAFADEI-----GIPFMETSAKDSLNVEQAF 157
           +K  S +  K   D++      + ++E S+   + + + F
Sbjct: 139 RKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 81/172 (47%), Gaps = 3/172 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           ++K+LL+G  GVGKS L   F      D   +        R++  DG+   L ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFG--GVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLT 121
           +  R +           +IVY VTD+ SF    +   ++ R   +++V  +LVGNK DL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPA 173
             + VS +  +A A      F+ETSA    NV+  F  +   I+ R  S+ A
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSKEA 176

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/170 (30%), Positives = 80/170 (47%), Gaps = 3/170 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           ++K+LL+G  GVGKS L   F      D   +        R++  DG+   L ++D   Q
Sbjct: 7   VYKVLLLGAPGVGKSALARIFG--GVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 64
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLT 121
           +  R +           +IVY VTD+ SF    +   ++ R   +++V  +LVGNK DL 
Sbjct: 65  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 124
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
             + VS +  +A A      F+ETSA    NV+  F  +   I+ R  S+
Sbjct: 125 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 174

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/166 (30%), Positives = 78/166 (46%), Gaps = 3/166 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           ++K+LL+G  GVGKS L   F      D   +        R++  DG+   L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFG--GVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ 59
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLT 121
           +  R +           +IVY VTD+ SF    +   ++ R   +++V  +LVGNK DL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
             + VS +  +A A      F+ETSA    NV+  F  +   I+ R
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 78/153 (50%), Gaps = 12/153 (7%)
Query: 5   KLLLIGDSGVGKSCLLLRFAD--DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIW--DTA 60
           K+ ++G++ VGKS L+  F      +L  Y  T GV+  +  V     TV ++++  DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI-----DRYASENVNKLLVG 115
           G + ++   S Y+ G +  I+V+DV+  ESF + K W   +     DR     +  +LV 
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDR--ERPLRAVLVA 139
Query: 116 NKCDLTDKK-VVSYETAKAFADEIGIPFMETSA 147
           NK DL  ++  V  + A+ +A    + F + SA
Sbjct: 140 NKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSA 172

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 46/156 (29%), Positives = 76/156 (48%), Gaps = 10/156 (6%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L L+G    GK+  +   A   + +  I T+G  F +R + +   T+KL  WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQP 78
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLT- 121
           RFR++   Y RG   I+ + D  DQE     K  L N +D+   + +  L++GNK DL  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 138
Query: 122 ---DKKVVSYETAKAFAD-EIGIPFMETSAKDSLNV 153
              +K+++      A  D EI    +    KD++++
Sbjct: 139 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDI 174

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 77/156 (49%), Gaps = 10/156 (6%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L L+G    GK+  +   A   + +  I T+G  F +R V +   T+K  IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVG--FNMRKVTKGNVTIK--IWDIGGQP 78
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLT- 121
           RFR++   Y RG + I+ + D  D+E     +  L N +D+   + +  L++GNK DL  
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPN 138
Query: 122 ---DKKVVSYETAKAFAD-EIGIPFMETSAKDSLNV 153
              +K+++      A  D EI    +    KD++++
Sbjct: 139 ALDEKQLIEKMNLSAIQDREICCYSISCKEKDNIDI 174

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 46/156 (29%), Positives = 76/156 (48%), Gaps = 10/156 (6%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L L+G    GK+  +   A   + +  I T+G  F +R + +   T+KL  WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQP 87
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLT- 121
           RFR++   Y RG   I+ + D  DQE     K  L N +D+   + +  L++GNK DL  
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 147
Query: 122 ---DKKVVSYETAKAFAD-EIGIPFMETSAKDSLNV 153
              +K+++      A  D EI    +    KD++++
Sbjct: 148 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDI 183

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ
Sbjct: 323 MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQ 376
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 377 DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 435
Query: 121 TD 122
            D
Sbjct: 436 PD 437

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 81/186 (43%), Gaps = 24/186 (12%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFAD---------DSYLDSYISTIGVDFKIRTVEQDGKT 51
           D +FK++L+G+SGVGKS L   F           ++  D+Y   I VD      +++   
Sbjct: 21  DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVD------KEEVTL 74
Query: 52  VKLQIW---DTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASE 107
           V   IW   D  G  R   + +         +IV+ VTD+ SF+ V + L  +       
Sbjct: 75  VVYDIWEQGDAGGWLRDHCLQT-----GDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHH 129
Query: 108 NVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           ++  +LVGNK DL   + VS E  +  A  +    +ETSA    N  + F      I+ R
Sbjct: 130 DLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 189
Query: 168 MASQPA 173
                A
Sbjct: 190 RGRNHA 195

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 59.7 bits (143), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQ 54
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 113
Query: 121 TD 122
            D
Sbjct: 114 PD 115

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 59.7 bits (143), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ
Sbjct: 13  MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQ 66
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 67  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 125
Query: 121 TD 122
            D
Sbjct: 126 PD 127

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 59.7 bits (143), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ
Sbjct: 14  MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQ 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 68  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 126
Query: 121 TD 122
            D
Sbjct: 127 PD 128

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQ 54
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 113
Query: 121 TD 122
            D
Sbjct: 114 PD 115

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 2/169 (1%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D +FK++L+G+SGVGKS L   F      +++      D   R +  D + V L ++D  
Sbjct: 10  DGVFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIW 69
Query: 61  GQ-ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKC 118
            Q +    +     +     +IV+ VTD+ SF+ V + L  +       ++  +LVGNK 
Sbjct: 70  EQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKS 129
Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DL   + VS E  +  A  +    +ETSA    N  + F      I+ R
Sbjct: 130 DLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 178

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 61/121 (50%), Gaps = 10/121 (8%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++L +G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  GQ+
Sbjct: 2   RILXLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGQD 55
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDLT 121
           + R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL 
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAI-ILIFANKQDLP 114
Query: 122 D 122
           D
Sbjct: 115 D 115

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 76/167 (45%), Gaps = 2/167 (1%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FK++L+G+SGVGKS L   F       ++      D   R +  D + V L ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61
Query: 63  -ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDL 120
            +    +     +     +IV+ VTD+ SF+ V + L  +       ++  +LVGNK DL
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121
Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              + VS E  +  A  +    +ETSA    N  + F      I+ R
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 57.0 bits (136), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 61/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  G 
Sbjct: 4   MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGL 57
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 58  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 116
Query: 121 TD 122
            D
Sbjct: 117 PD 118

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 57.0 bits (136), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 59/120 (49%), Gaps = 6/120 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L +      + + I TIG  F + TV+   K +   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETVQY--KNISFTVWDVGGQD 55
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTD 122
           R R++   YYR   G+I V D  D+      ++ +   ++     N   L+  NK DL +
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 115

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 61/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  G 
Sbjct: 3   MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGL 56
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 57  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 115
Query: 121 TD 122
            D
Sbjct: 116 PD 117

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 59/120 (49%), Gaps = 6/120 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L +      + + I TIG  F + TV+   K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETVQY--KNISFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTD 122
           R R++   YYR   G+I V D  D+      ++ +   ++     N   L+  NK DL +
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPE 132

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 61/122 (50%), Gaps = 10/122 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG-VDFKIRTVEQDGKTVKLQIWDTAGQ 62
            ++L++G    GK+ +L +      L   ++TI  V F + TV    K VK  +WD  G 
Sbjct: 14  MRILMLGLDAAGKTTILYKLK----LGQSVTTIPTVGFNVETVTY--KNVKFNVWDVGGL 67
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDL 120
           ++ R +   YY G  G+I V D  D++  +  +Q L+ I  DR   + +  L+  NK DL
Sbjct: 68  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI-ILIFANKQDL 126
Query: 121 TD 122
            D
Sbjct: 127 PD 128

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 59/120 (49%), Gaps = 6/120 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L +      + + I TIG  F + TV+   K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETVQY--KNISFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTD 122
           R R++   YYR   G+I V D  D+      ++ +   ++     N   L+  NK DL +
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPE 132

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/120 (30%), Positives = 63/120 (52%), Gaps = 10/120 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +LL++G    GK+ +L +F  +  +D+   T+G  F I+T+E  G   KL IWD  GQ+
Sbjct: 17  LRLLMLGLDNAGKTTILKKFNGED-IDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQK 71
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCDL 120
             R+   +Y+    G+I V D  D++   + ++ L  +   +R A   +  L+  NK DL
Sbjct: 72  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL--LIFANKQDL 129

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 68/141 (48%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 220
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +    L+  NK D
Sbjct: 221 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQD 277
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 278 LPNAM-----NAAEITDKLGL 293

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/120 (30%), Positives = 63/120 (52%), Gaps = 10/120 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +LL++G    GK+ +L +F  +  +D+   T+G  F I+T+E  G   KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCDL 120
             R+   +Y+    G+I V D  D++   + ++ L  +   +R A   +  L+  NK DL
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL--LIFANKQDL 131

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/120 (30%), Positives = 63/120 (52%), Gaps = 10/120 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +LL++G    GK+ +L +F  +  +D+   T+G  F I+T+E  G   KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQK 73
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCDL 120
             R+   +Y+    G+I V D  D++   + ++ L  +   +R A   +  L+  NK DL
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL--LIFANKQDL 131

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 68/141 (48%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 55
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +    L+  NK D
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQD 112
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 113 LPNAM-----NAAEITDKLGL 128

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 68/141 (48%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +    L+  NK D
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQD 129
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 130 LPNAM-----NAAEITDKLGL 145

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 68/141 (48%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 17  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 71
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +    L+  NK D
Sbjct: 72  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQD 128
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 129 LPNAM-----NAAEITDKLGL 144

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 44/156 (28%), Positives = 73/156 (46%), Gaps = 6/156 (3%)
Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           L ++G  G GKS L ++F    ++  Y   +   +       D + V L++ DTA  +  
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEET-VDHQPVHLRVMDTADLDTP 82
Query: 66  RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE---NVNKLLVGNKCDLTD 122
           R     Y   AH  ++VY V  ++SF++   +L  +  +A E   ++  LL+GNK D+  
Sbjct: 83  RN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ 141
Query: 123 KKVVSYETAKAFADEIGIPFMETSA-KDSLNVEQAF 157
            + V+     A A   G  F E SA  D  +V+  F
Sbjct: 142 YRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVF 177

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/132 (29%), Positives = 62/132 (46%), Gaps = 10/132 (7%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNICFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE---IDRYASENVNKLLVGNKCDL 120
           R R +   Y++   G+I V D  D+E    V   L +   +D     +   LL  NK DL
Sbjct: 73  RIRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKMLLVDEL--RDAVLLLFANKQDL 130
Query: 121 TDKKVVSYETAK 132
            +   +S  T K
Sbjct: 131 PNAMAISEMTDK 142

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 71/146 (48%), Gaps = 10/146 (6%)
Query: 5   KLLLIGDSGVGKSCLL--LRFADDSYLDSYISTIGVDFK---IRTVEQDGKTVKLQIWDT 59
           KL ++G++G GK+ LL  L     S L    +T+G+D K   I+  ++  + + L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKC 118
           AG+E F +    +       + VYD++  Q   +  K WL  I   AS +   +LVG   
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSS-PVILVGTHL 120
Query: 119 DLTD---KKVVSYETAKAFADEIGIP 141
           D++D   +K    +  K   ++ G P
Sbjct: 121 DVSDEKQRKACXSKITKELLNKRGFP 146

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 71/146 (48%), Gaps = 10/146 (6%)
Query: 5   KLLLIGDSGVGKSCLL--LRFADDSYLDSYISTIGVDFK---IRTVEQDGKTVKLQIWDT 59
           KL ++G++G GK+ LL  L     S L    +T+G+D K   I+  ++  + + L +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKC 118
           AG+E F +    +       + VYD++  Q   +  K WL  I   AS +   +LVG   
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSS-PVILVGTHL 122
Query: 119 DLTD---KKVVSYETAKAFADEIGIP 141
           D++D   +K    +  K   ++ G P
Sbjct: 123 DVSDEKQRKACXSKITKELLNKRGFP 148

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 36/130 (27%), Positives = 61/130 (46%), Gaps = 6/130 (4%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTD 122
           + R +   YY+    II V D  D++     ++ L + ++     N   L+  NK DL  
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQ 132
Query: 123 KKVVSYETAK 132
              +S  T K
Sbjct: 133 AMSISEVTEK 142

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 66/138 (47%), Gaps = 12/138 (8%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +      + + I TIG  F + TVE   + +   +WD  GQ++
Sbjct: 19  RILMVGLDAAGKTTILYKVKLGEVVTT-IPTIG--FNVETVE--FRNISFTVWDVGGQDK 73
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCDL 120
            R +   YY    G+I V D  D+E  ++ ++   E+ R  +E   K    L+  NK DL
Sbjct: 74  IRPLWRHYYSNTDGLIFVVDSNDRERIDDARE---ELHRMINEEELKDAIILVFANKQDL 130
Query: 121 TDKKVVSYETAKAFADEI 138
            +    +  T K   + I
Sbjct: 131 PNAMSAAEVTEKLHLNTI 148

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 63/121 (52%), Gaps = 10/121 (8%)
Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           + +LL++G    GK+ +L +F  +  +D+   T+G  F I+T+E  G   KL IWD  G 
Sbjct: 1   MLRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGL 55
Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCD 119
           +  R+   +Y+    G+I V D  D++   + ++ L  +   +R A   +  L+  NK D
Sbjct: 56  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL--LIFANKQD 113
Query: 120 L 120
           L
Sbjct: 114 L 114

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 37/141 (26%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  G +
Sbjct: 3   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGLD 57
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +    L+  NK D
Sbjct: 58  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQD 114
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 115 LPNAM-----NAAEITDKLGL 130

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 37/146 (25%), Positives = 71/146 (48%), Gaps = 17/146 (11%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNICFTVWDVGGQD 84
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D+E    V++  +E+ +   E+  +    L+  NK D
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRE---RVQESADELQKMLQEDELRDAVLLVFANKQD 141
Query: 120 LTDKKVVSYETAKAFADEIGIPFMET 145
           + +   VS        D++G+  + +
Sbjct: 142 MPNAMPVS-----ELTDKLGLQHLRS 162

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/175 (25%), Positives = 74/175 (42%), Gaps = 23/175 (13%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + + I TIG  F + TV    K +K Q+WD  GQ 
Sbjct: 3   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGQT 57
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLV---GNKCDL 120
             R     YY     +I V D  D++     K  L  +     E + K ++    NK D+
Sbjct: 58  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSEL--VAMLEEEELRKAILVVFANKQDM 115
Query: 121 TDKKVVSYETAKAFADEIGIP--------FMETSAKDSLNVEQAFMAMTADIKNR 167
                    T    A+ +G+P          +TSA     +++A   +   +K+R
Sbjct: 116 EQAM-----TPSEMANALGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 165

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/141 (25%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQD 75
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNKCD 119
           + R +   Y++   G+I V D  D++     +   +E+ R  +E+  +    L+  NK D
Sbjct: 76  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEAR---DELHRMLNEDELRDAVLLVFANKQD 132
Query: 120 LTDKKVVSYETAKAFADEIGI 140
           L +        A    D++G+
Sbjct: 133 LPNAM-----NAAEITDKLGL 148

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/109 (31%), Positives = 57/109 (52%), Gaps = 10/109 (9%)
Query: 15  GKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR 74
           GK+ +L +F  +  +D+   T+G  F I+T+E  G   KL IWD  GQ+  R+   +Y+ 
Sbjct: 30  GKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFE 84
Query: 75  GAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCDL 120
              G+I V D  D++   + ++ L  +   +R A   +  L+  NK DL
Sbjct: 85  STDGLIWVVDSADRQRXQDCQRELQSLLVEERLAGATL--LIFANKQDL 131

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 57/123 (46%), Gaps = 12/123 (9%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L +      + + I TIG  F +  V+     +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVECVQY--CNISFTVWDVGGQD 72
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCD 119
           R R++   YY    G+I V D  D+      ++    + R  +E    N   L+  NK D
Sbjct: 73  RIRSLWRHYYCNTEGVIFVVDSNDRSRIGEARE---VMQRMLNEDELCNAAWLVFANKQD 129
Query: 120 LTD 122
           L +
Sbjct: 130 LPE 132

>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In Complex With Unc119a Length = 189

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 5/96 (5%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D   ++LL+G    GK+ LL + A +    S+I T    F I++V+  G   KL +WD  
Sbjct: 15  DQEVRILLLGLDNAGKTTLLKQLASEDI--SHI-TPTQGFNIKSVQSQG--FKLNVWDIG 69
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ 96
           GQ + R    SY+     +I V D  D++ F    Q
Sbjct: 70  GQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQ 105

>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp Length = 181

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 5/96 (5%)
Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D   ++LL+G    GK+ LL + A +    S+I T    F I++V+  G   KL +WD  
Sbjct: 14  DQEVRILLLGLDNAGKTTLLKQLASEDI--SHI-TPTQGFNIKSVQSQG--FKLNVWDIG 68
Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ 96
           GQ + R    SY+     +I V D  D++ F    Q
Sbjct: 69  GQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQ 104

>pdb|3BH7|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gdp-Alf4 Length = 164

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/92 (32%), Positives = 46/92 (50%), Gaps = 5/92 (5%)
Query: 5  KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
          ++LL+G    GK+ LL + A +    S+I T    F I++V+  G   KL +WD  GQ +
Sbjct: 6  RILLLGLDNAGKTTLLKQLASEDI--SHI-TPTQGFNIKSVQSQG--FKLNVWDIGGQRK 60
Query: 65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ 96
           R    SY+     +I V D  D++ F    Q
Sbjct: 61 IRPYWRSYFENTDILIYVIDSADRKRFEETGQ 92

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 42/162 (25%), Positives = 77/162 (47%), Gaps = 19/162 (11%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G    GK+ +L +F+ +  + +   TIG + +   +       +  +WD  GQE 
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSNVEEIVI----NNTRFLMWDIGGQES 78
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCDLT 121
            R+  ++YY     +I+V D TD+E  +  ++ L ++   A E++ K   L+  NK D+ 
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAGLLIFANKQDVK 136
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD 163
           +   V+         EI      TS KD     QA  A+T +
Sbjct: 137 ECMTVA---------EISQFLKLTSIKDHQWHIQACCALTGE 169

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 42/162 (25%), Positives = 77/162 (47%), Gaps = 19/162 (11%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G    GK+ +L +F+ +  + +   TIG + +   +       +  +WD  GQE 
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSNVEEIVI----NNTRFLMWDIGGQES 77
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCDLT 121
            R+  ++YY     +I+V D TD+E  +  ++ L ++   A E++ K   L+  NK D+ 
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAGLLIFANKQDVK 135
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD 163
           +   V+         EI      TS KD     QA  A+T +
Sbjct: 136 ECMTVA---------EISQFLKLTSIKDHQWHIQACCALTGE 168

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/162 (26%), Positives = 77/162 (47%), Gaps = 19/162 (11%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G    GK+ +L +F+ +  + +   TIG + +    E      +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSNVE----EIVINNTRFLMWDIGGQES 72
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCDLT 121
            R+  ++YY     +I+V D TD+E  +  ++ L ++   A E++ K   L+  NK D+ 
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAGLLIFANKQDVK 130
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD 163
           +   V+         EI      TS KD     QA  A+T +
Sbjct: 131 ECMTVA---------EISQFLKLTSIKDHQWHIQACCALTGE 163

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 43/162 (26%), Positives = 77/162 (47%), Gaps = 19/162 (11%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G    GK+ +L +F+ +  + +   TIG + +    E      +  +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSNVE----EIVINNTRFLMWDIGGQES 72
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCDLT 121
            R+  ++YY     +I+V D TD+E  +  ++ L ++   A E++ K   L+  NK D+ 
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM--LAHEDLRKAGLLIFANKQDVK 130
Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD 163
           +   V+         EI      TS KD     QA  A+T +
Sbjct: 131 ECMTVA---------EISQFLKLTSIKDHQWHIQACCALTGE 163

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 73/174 (41%), Gaps = 23/174 (13%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + + I TIG  F + TV    K +K Q+WD  G  
Sbjct: 5   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLT 59
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLV---GNKCDL 120
             R     YY     +I V D  D++     K  L  +     E + K ++    NK D+
Sbjct: 60  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSEL--VAMLEEEELRKAILVVFANKQDM 117
Query: 121 TDKKVVSYETAKAFADEIGIP--------FMETSAKDSLNVEQAFMAMTADIKN 166
                    T+   A+ +G+P          +TSA     +++A   +   +K+
Sbjct: 118 EQAM-----TSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS 166

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 5/96 (5%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + +   TIG  F + T+    K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTTK-PTIG--FNVETLSY--KNLKLNVWDLGGQT 73
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLN 99
             R     YY     +I V D TD++  +   + L+
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELH 109

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 14/140 (10%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G    GK+ +L +F  +  + +   TIG + +   V    K     +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFLMNEVVHTS-PTIGSNVEEIVV----KNTHFLMWDIGGQES 72
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLVGNKCD-- 119
            R+  ++YY     II+V D  D+E     K+ L  +   A E++ K   L+  NK D  
Sbjct: 73  LRSSWNTYYSNTEFIILVVDSIDRERLAITKEELYRM--LAHEDLRKAAVLIFANKQDMK 130
Query: 120 --LTDKKVVSYETAKAFADE 137
             +T  ++  Y T  +  D 
Sbjct: 131 GCMTAAEISKYLTLSSIKDH 150

>pdb|3BH6|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gppnhp Length = 164

Iteration: 1
 Score = 43.1 bits (100), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 29/92 (31%), Positives = 45/92 (48%), Gaps = 5/92 (5%)
Query: 5  KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
          ++LL+G    GK+ LL + A +    S+I T    F I++V+  G   KL +WD  G  +
Sbjct: 6  RILLLGLDNAGKTTLLKQLASEDI--SHI-TPTQGFNIKSVQSQG--FKLNVWDIGGLRK 60
Query: 65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ 96
           R    SY+     +I V D  D++ F    Q
Sbjct: 61 IRPYWRSYFENTDILIYVIDSADRKRFEETGQ 92

>pdb|1UPT|A Chain A, Structure Of A Complex Of The Golgin-245 Grip Domain With Arl1 Length = 171

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 70/172 (40%), Gaps = 19/172 (11%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G  G GK+ +L R      + + I TIG  F + TV    K +K Q+WD  G   
Sbjct: 9   RILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLTS 63
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLV-GNKCDLTDK 123
            R     YY     +I V D  D++     K  L             L+V  NK D    
Sbjct: 64  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAXLEEEELRKAILVVFANKQDXEQA 123
Query: 124 KVVSYETAKAFADEIGIP--------FMETSAKDSLNVEQAFMAMTADIKNR 167
                 T+   A+ +G+P          +TSA     +++A   +   +K+R
Sbjct: 124 X-----TSSEXANSLGLPALKDRKWQIFKTSATKGTGLDEAXEWLVETLKSR 170

>pdb|2GAO|A Chain A, Crystal Structure Of Human Sar1a In Complex With Gdp Length = 208

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 54/120 (45%), Gaps = 8/120 (6%)
Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+ +G    GK+ LL    DD  L  ++ T+    +  T+      +    +D  G E+
Sbjct: 37  KLVFLGLDNAGKTTLLHMLKDDR-LGQHVPTLHPTSEELTI----AGMTFTTFDLGGHEQ 91
Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVGNKCDLTD 122
            R +  +Y    +GI+ + D  D       K  LN +  D   S NV  L++GNK D TD
Sbjct: 92  ARRVWKNYLPAINGIVFLVDCADHSRLVESKVELNALMTDETIS-NVPILILGNKIDRTD 150

>pdb|2BMJ|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 13/160 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L ++GD+  GKS L+ RF   SY      T    +K + +  DG+T  + I + AG  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYK-KEMLVDGQTHLVLIREEAG-- 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL---LVG--NKC 118
                 + +   A  +I V+ + D+ SF  V +   ++     E    L   LVG  ++ 
Sbjct: 64  ---APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120
Query: 119 DLTDKKVVSYETAKAF-ADEIGIPFMETSAKDSLNVEQAF 157
             +  +VV    A+A  AD     + ET A   LNV++ F
Sbjct: 121 SASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVF 160

>pdb|2IWR|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 13/160 (8%)
Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L ++GD+  GKS L+ RF   SY      T    +K + +  DG+T  + I + AG  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYK-KEMLVDGQTHLVLIREEAG-- 63
Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL---LVG--NKC 118
                 + +   A  +I V+ + D+ SF  V +   ++     E    L   LVG  ++ 
Sbjct: 64  ---APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120
Query: 119 DLTDKKVVSYETAKAF-ADEIGIPFMETSAKDSLNVEQAF 157
             +  +VV    A+A  AD     + ET A   LNV++ F
Sbjct: 121 SASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVF 160

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	198
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-129
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-128
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-127
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-125
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-124
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-124
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-124
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-124
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-124
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-123
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-123
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-123
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-122
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-122
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-121
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-121
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-121
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-121
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-120
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-120
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-120
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-120
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-119
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-118
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-118
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-118
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-118
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	1e-118
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-117
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-117
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-117
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-117
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-115
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-115
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-114
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-114
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-113
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-111
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-111
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-109
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-109
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-107
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-104
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	1e-102
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	1e-100
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-98
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	3e-98
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	4e-97
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	5e-96
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	9e-96
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	4e-95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	5e-95
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-94
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	8e-94
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	9e-94
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-93
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	7e-93
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	3e-92
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-91
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-91
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	5e-90
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	5e-90
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	4e-89
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	6e-89
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-85
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-82
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	4e-81
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-80
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	1e-75
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-69
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-59
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	7e-56
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-55
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-54
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-53
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-52
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	7e-51
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-50
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-50
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	4e-50
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	3e-47
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	4e-47
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-46
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-45
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-29
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-25
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	1e-20
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-20
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	3e-20
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	3e-20
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-19
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	2e-19
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	2e-19
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	5e-19
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	7e-19
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	1e-18
3llu_A	196	RAS-related GTP-binding protein C; structural geno	1e-17
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	1e-16
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-16
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	3e-16
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	6e-16
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-15
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-14
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-14
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-14
1nrj_B	218	SR-beta, signal recognition particle receptor beta	6e-14
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	7e-11
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	3e-05
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	5e-04
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	5e-04
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	7e-04
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	7e-04

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  361 bits (928), Expect = e-129
 Identities = 138/200 (69%), Positives = 153/200 (76%), Gaps = 4/200 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIG+SGVGKSCLLLRF+DD+Y + YISTIGVDFKI+TVE DGKTVKLQIWDTA
Sbjct: 6   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRG+HGIIIVYDVTDQESFN VK WL EIDRYA+  V KLLVGNKCDL
Sbjct: 66  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ----PAMNN 176
            DK+VV Y+ AK FAD   +PF+ETSA DS NVE AF+ M   IK  M+ Q         
Sbjct: 126 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 185

Query: 177 ARPPTVQIKGQPVNQKASCC 196
                V +KGQ +     CC
Sbjct: 186 EDKGNVNLKGQSLTNTGGCC 205

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  358 bits (920), Expect = e-128
 Identities = 147/183 (80%), Positives = 159/183 (86%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 14  DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 73

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 74  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 133

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM        A   
Sbjct: 134 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 193

Query: 181 TVQ 183
            V+
Sbjct: 194 NVK 196

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  354 bits (911), Expect = e-127
 Identities = 91/197 (46%), Positives = 135/197 (68%), Gaps = 6/197 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FK+L+IG+S VGK+  L R+ADDS+  +++ST+G+DFK++T+ ++ K +KLQIWDTA
Sbjct: 6   DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   LLVGNKCD+
Sbjct: 66  GLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM------ASQPAM 174
            D++VVS E  +  AD +G  F E SAKD++NV+Q F  +   I  +M      A     
Sbjct: 126 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVT 185

Query: 175 NNARPPTVQIKGQPVNQ 191
              + P +  +  P +Q
Sbjct: 186 GAKQGPQLTDQQAPPHQ 202

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  352 bits (904), Expect = e-125
 Identities = 96/197 (48%), Positives = 138/197 (70%), Gaps = 1/197 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQ+WDTA
Sbjct: 18  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 77

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYDVTD+ +F N+KQW   ++ +A++    LLVGNK D+
Sbjct: 78  GQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 137

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S   +      
Sbjct: 138 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNGK 196

Query: 181 TVQIKGQPVNQKASCCS 197
              I     +  +S  +
Sbjct: 197 EGNISINSGSGNSSKSN 213

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  348 bits (895), Expect = e-124
 Identities = 87/173 (50%), Positives = 126/173 (72%), Gaps = 1/173 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           D  FK++L+GDSGVGK+CLL+RF D ++   ++IST+G+DF+ + ++ DG  VKLQ+WDT
Sbjct: 8   DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDT 67

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
           AGQERFR++T +YYR AH ++++YDVT++ SF+N++ WL EI  YA  +V  +L+GNK D
Sbjct: 68  AGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD 127

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
              ++VV  E  +  A E G+PFMETSAK  LNV+ AF A+  ++K R    P
Sbjct: 128 SAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  348 bits (896), Expect = e-124
 Identities = 86/177 (48%), Positives = 126/177 (71%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK++LIG++GVGK+CL+ RF    +     +TIGVDF I+TVE +G+ VKLQIWDTA
Sbjct: 24  DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTA 83

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR+IT SYYR A+ +I+ YD+T +ESF  + +WL EI++YAS  V  +LVGNK DL
Sbjct: 84  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDL 143

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNA 177
            +++ VS + A+ F++   + ++ETSAK+S NVE+ F+ +   + +       +NN 
Sbjct: 144 AERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNNV 200

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  348 bits (894), Expect = e-124
 Identities = 103/177 (58%), Positives = 140/177 (79%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGK+C+L RF++D++  ++ISTIG+DFKIRT+E DGK +KLQIWDTA
Sbjct: 6   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GI++VYD+T+++SF+N++ W+  I+ +AS +V K+++GNKCD+
Sbjct: 66  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNA 177
            DK+ VS E  +  A + GI FMETSAK ++NVE AF  +  DIK +M        A
Sbjct: 126 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  348 bits (895), Expect = e-124
 Identities = 145/169 (85%), Positives = 156/169 (92%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGKSCLLLRFADD+Y +SYISTIGVDFKIRT+E DGKT+KLQIWDTA
Sbjct: 31  DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTA 90

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRGAHGII+VYDVTDQESFNNVKQWL EIDRYASENVNKLLVGNKCDL
Sbjct: 91  GQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 150

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           T KKVV Y TAK FAD +GIPF+ETSAK++ NVEQ+FM M A+IK RM 
Sbjct: 151 TTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 199

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  347 bits (893), Expect = e-124
 Identities = 85/169 (50%), Positives = 129/169 (76%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FKLL+IG+S VGK+  L R+ADD++  +++ST+G+DFK++TV +  K VKLQIWDTA
Sbjct: 21  DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTA 80

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   +LVGNKCD+
Sbjct: 81  GQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDM 140

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
            +++VV  E  +  A+++G  F E SAK++++V QAF  +   I ++M+
Sbjct: 141 EEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  344 bits (886), Expect = e-123
 Identities = 78/171 (45%), Positives = 115/171 (67%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           +++FK++LIG+SGVGK+ LL RF  + +     +TIGV+F  RTV      VK QIWDTA
Sbjct: 23  NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTA 82

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++V+D+T  +++  V++WL E+  +A   +  +LVGNK DL
Sbjct: 83  GLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDL 142

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           +  + V  E A+ FA+  G+ F+ETSA DS NVE AF  +  +I  +++ Q
Sbjct: 143 SQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  344 bits (884), Expect = e-123
 Identities = 87/168 (51%), Positives = 125/168 (74%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FKLLLIG+S VGK+  L R+ADDS+  +++ST+G+DFK++TV +  K +KLQIWDTA
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTA 79

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G +++YD+ +QESF  V+ W  +I  Y+ +N   +LVGNKCDL
Sbjct: 80  GQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL 139

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            D++VV  E  +  AD++G  F E SAK+++NV+Q F  +   I  +M
Sbjct: 140 EDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM 187

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  344 bits (885), Expect = e-123
 Identities = 85/171 (49%), Positives = 122/171 (71%), Gaps = 1/171 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFKL+L+GD+ VGK+C++ RF   ++ +   STIGVDF ++T+E  GK VKLQIWDTA
Sbjct: 27  DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTA 86

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT SYYR A+G I+ YD+T + SF +V  W+ ++ +YA  N+ +LL+GNK DL
Sbjct: 87  GQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDL 146

Query: 121 TDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
           ++ + VS   A++ A+   I   +ETSAKDS NVE+AF+ +  ++  R   
Sbjct: 147 SELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHGG 197

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  343 bits (882), Expect = e-122
 Identities = 106/175 (60%), Positives = 135/175 (77%), Gaps = 1/175 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFKLL+IGDSGVGKS LLLRFAD+++  SYI+TIGVDFKIRTVE +G+ VKLQIWDTA
Sbjct: 7   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTA 66

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITS+YYRG HG+I+VYDVT  ESF NVK+WL+EI++   ++V ++LVGNK D 
Sbjct: 67  GQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDD 125

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMN 175
            ++KVV  E A  FA ++GI   ETSAK+++NVE+ F  +T  +        A  
Sbjct: 126 PERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  343 bits (882), Expect = e-122
 Identities = 83/169 (49%), Positives = 124/169 (73%), Gaps = 1/169 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+  ++++IG  GVGK+ L+ RF DD++ ++  ST+GVDFKI+TVE  GK ++LQIWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERF +ITS+YYR A GII+VYD+T +E+F+++ +W+  ID+YASE+   LLVGNK D 
Sbjct: 84  GQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC 143

Query: 121 TDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
              + ++ +  + FA +I G+ F E SAKD+ NV++ F+ +  DI  +M
Sbjct: 144 ETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  341 bits (876), Expect = e-121
 Identities = 86/164 (52%), Positives = 117/164 (71%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 27  DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 86

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 87  GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 146

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
              + V  + A+AFA++ G+ F+ETSA DS NVE AF  +  +I
Sbjct: 147 RHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  341 bits (876), Expect = e-121
 Identities = 87/177 (49%), Positives = 123/177 (69%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 3   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 63  GQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNA 177
              + V  + A+AFA++  + F+ETSA DS NVE+AF  +  +I   ++ +   + A
Sbjct: 123 RHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRA 179

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  339 bits (873), Expect = e-121
 Identities = 87/170 (51%), Positives = 120/170 (70%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
            YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R V  DGK +KLQIWDTA
Sbjct: 19  SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTA 78

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQE FR+IT SYYRGA G ++VYD+T +E+FN++  WL +  +++S N+  +L+GNK DL
Sbjct: 79  GQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDL 138

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
             ++ V  E  +AFA E G+ FMETSAK + NVE+AF+    +I  ++  
Sbjct: 139 ESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 188

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  341 bits (876), Expect = e-121
 Identities = 91/213 (42%), Positives = 123/213 (57%), Gaps = 17/213 (7%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D LFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+E +GK +K QIWDTA
Sbjct: 11  DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTA 70

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G +IVYD++   S+ N   WL+E+   A +NV   L+GNK DL
Sbjct: 71  GQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDL 130

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP-------- 172
              + V  E +K FA E  + F ETSA +S NV++AF  +   I  +++           
Sbjct: 131 AHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSA 190

Query: 173 -----AMNNARPPTVQIKGQPVNQKA----SCC 196
                  +    PT+ +   P   K     +CC
Sbjct: 191 NGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  339 bits (871), Expect = e-120
 Identities = 72/196 (36%), Positives = 112/196 (57%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTA
Sbjct: 14  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 73

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           G ERFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL
Sbjct: 74  GLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL 133

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            DK+ VS E  +  A E+ + F+ETSAK   NV+Q F  + A +    ++Q         
Sbjct: 134 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID 193

Query: 181 TVQIKGQPVNQKASCC 196
               K Q        C
Sbjct: 194 IKLEKPQEQPVSEGGC 209

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  337 bits (867), Expect = e-120
 Identities = 94/170 (55%), Positives = 132/170 (77%), Gaps = 1/170 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GII+VYD+TD+ +F N+KQW   ++ +A++    LLVGNK D+
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
            + +VV+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++ S
Sbjct: 121 -ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  337 bits (868), Expect = e-120
 Identities = 81/171 (47%), Positives = 113/171 (66%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG++G GKSCLL +F +  + D    TIGV+F  + +   GK VKLQIWDTA
Sbjct: 8   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 67

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N +  WL +    AS+N+  +L GNK DL
Sbjct: 68  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 127

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
              + V++  A  FA E  + F+ETSA    NVE+AF+     I N++ S 
Sbjct: 128 DADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESG 178

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  338 bits (868), Expect = e-120
 Identities = 83/172 (48%), Positives = 114/172 (66%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG +G GKSCLL +F ++ +      TIGV+F  R V   GKTVKLQIWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N++  WL +    AS N+  +L GNK DL
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDL 142

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
             ++ V++  A  FA E  + F+ETSA    NVE+AF+     I N++ S  
Sbjct: 143 DPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGE 194

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  333 bits (856), Expect = e-119
 Identities = 79/165 (47%), Positives = 110/165 (66%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
            Y+FK ++IGD GVGKSCLL +F +  ++     TIGV+F  R +E  G+ +KLQIWDTA
Sbjct: 13  SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTA 72

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR +T SYYRGA G ++VYD+T + ++N++  WL +     + N   +L+GNK DL
Sbjct: 73  GQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL 132

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
             ++ V+YE AK FA+E G+ F+E SAK   NVE AF+     I 
Sbjct: 133 EAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 177

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  333 bits (856), Expect = e-118
 Identities = 70/173 (40%), Positives = 111/173 (64%), Gaps = 6/173 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              +K++L GD+ VGKS  L+R   + + ++  +T+GVDF+++T+  DG+   LQ+WDTA
Sbjct: 26  QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTA 85

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR+I  SY+R A G++++YDVT ++SF N+++W++ I+  A E V  +LVGNK D+
Sbjct: 86  GQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADI 145

Query: 121 TD------KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            D      +K V     +  A   G  F ETSAKD  N+ +A + +  ++K R
Sbjct: 146 RDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKR 198

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  333 bits (855), Expect = e-118
 Identities = 82/182 (45%), Positives = 112/182 (61%), Gaps = 2/182 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               K+L+IG+SGVGKS LLLRF DD++     +TIGVDFK++T+  DG   KL IWDTA
Sbjct: 13  LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTA 72

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKCD 119
           GQERFRT+T SYYRGA G+I+VYDVT +++F  +  WLNE++ Y + N +  +LVGNK D
Sbjct: 73  GQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKID 132

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP 179
             + + V       FA +  + F+E SAK    V+ AF  +   I        + N    
Sbjct: 133 K-ENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESENQNSG 191

Query: 180 PT 181
           P+
Sbjct: 192 PS 193

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  330 bits (850), Expect = e-118
 Identities = 57/167 (34%), Positives = 91/167 (54%), Gaps = 1/167 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           +   K++++G+  VGKS ++ R+    +   Y  TIGVDF  R ++ + + V+L +WDTA
Sbjct: 3   EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQE F  IT +YYRGA   ++V+  TD+ESF  +  W  ++      ++   LV NK DL
Sbjct: 63  GQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            D   +  E A+  A  + + F  TS K+ LNV + F  +      +
Sbjct: 122 LDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQK 168

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  330 bits (850), Expect = e-118
 Identities = 63/165 (38%), Positives = 104/165 (63%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
            Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+G  F  + +   GK V L IWDTA
Sbjct: 4   AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERF  +   YYR ++G I+VYD+TD++SF  VK W+ E+ +     +   +VGNK DL
Sbjct: 64  GQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDL 123

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
             ++ VS + A+++A+ +G     TSAK +  +E+ F+ +   + 
Sbjct: 124 EKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  332 bits (853), Expect = e-118
 Identities = 70/201 (34%), Positives = 112/201 (55%), Gaps = 4/201 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTA
Sbjct: 6   KVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGN 116
           GQERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GN
Sbjct: 66  GQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGN 125

Query: 117 KCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNN 176
           K DL +++V +         +  IP+ ETSAK+++NVEQAF  +  +   +       N 
Sbjct: 126 KIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 185

Query: 177 ARPPTVQIKGQPVNQKASCCS 197
              P    K +     A  CS
Sbjct: 186 FPEPIKLDKNERAKASAESCS 206

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  331 bits (850), Expect = e-117
 Identities = 74/171 (43%), Positives = 110/171 (64%), Gaps = 5/171 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             +FK+++IGDS VGK+CL  RF    + D   +TIGVDF+ R V+ DG+ +K+Q+WDTA
Sbjct: 18  SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTA 77

Query: 61  GQERFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASEN-VNKLLVGNKC 118
           GQERFR ++   YYR  H ++ VYD+T+  SF+++  W+ E  ++   N + ++LVGNKC
Sbjct: 78  GQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKC 137

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAK---DSLNVEQAFMAMTADIKN 166
           DL     V  + A+ FAD   +P  ETSAK   D+ +VE  FM +   +K+
Sbjct: 138 DLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS 188

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  331 bits (851), Expect = e-117
 Identities = 79/194 (40%), Positives = 121/194 (62%), Gaps = 12/194 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------- 50
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V  + +          
Sbjct: 23  DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAF 82

Query: 51  TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
            V LQ+WDTAGQERFR++T++++R A G ++++D+T Q+SF NV+ W++++   A  EN 
Sbjct: 83  KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 142

Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           + +L+GNK DL D++ V+   A+  AD+ GIP+ ETSA    NVE+A   +   I  RM 
Sbjct: 143 DIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM- 201

Query: 170 SQPAMNNARPPTVQ 183
            Q       P TV 
Sbjct: 202 EQCVEKTQIPDTVN 215

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  329 bits (847), Expect = e-117
 Identities = 73/171 (42%), Positives = 105/171 (61%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               KL+L+GD G GKS L+LRF  D +++   STIG  F  +T+  +  TVK +IWDTA
Sbjct: 10  SINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTA 69

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+ ++   YYRGA   IIV+DVT+Q SF   K+W+ E+    + N+   L GNK DL
Sbjct: 70  GQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDL 129

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
            D + V+ E A+ +A E G+ FMETSAK + NV++ F  +   +     ++
Sbjct: 130 LDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  328 bits (844), Expect = e-117
 Identities = 70/183 (38%), Positives = 116/183 (63%), Gaps = 11/183 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD----------GK 50
           DYL K L +GDSGVGK+ +L ++ D  +   +I+T+G+DF+ + V             G+
Sbjct: 9   DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQ 68

Query: 51  TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENV 109
            + LQ+WDTAG ERFR++T++++R A G ++++D+T+++SF NV+ W++++  +A SEN 
Sbjct: 69  RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP 128

Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMA 169
           + +L GNK DL D++ V  E A+  A++ GIP+ ETSA +  N+  A   +   I  RM 
Sbjct: 129 DIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRME 188

Query: 170 SQP 172
              
Sbjct: 189 RSV 191

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  326 bits (838), Expect = e-115
 Identities = 49/194 (25%), Positives = 87/194 (44%), Gaps = 2/194 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGV-DFKIRTVEQDGKTVKLQIWDT 59
           +  +K+ LIGD GVGK+  + R  D  +  +Y +T+G  +  +  ++  G  +K  +WDT
Sbjct: 9   ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDT 68

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
           AGQE+   +   YY GA G I+ +DVT + +  N+ +W+ E           ++  NK D
Sbjct: 69  AGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKID 128

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP-AMNNAR 178
           + +++ +S +            + E SAK + N    F+ +      R      +  N  
Sbjct: 129 IKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNLE 188

Query: 179 PPTVQIKGQPVNQK 192
           P  V        + 
Sbjct: 189 PTEVNYDYHSPEES 202

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  324 bits (833), Expect = e-115
 Identities = 68/171 (39%), Positives = 104/171 (60%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               K+ L+GD+GVGKS ++ RF  D +  +   TIG  F  +TV    +  K  IWDTA
Sbjct: 21  IRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTA 80

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERF ++   YYRG+   +IVYD+T Q+SF  +K+W+ E+  +  EN+   + GNKCDL
Sbjct: 81  GQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDL 140

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           +D + V  + AK +A+ IG   +ETSAK+++N+E+ F  ++  I      +
Sbjct: 141 SDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 191

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  322 bits (828), Expect = e-114
 Identities = 68/162 (41%), Positives = 104/162 (64%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ L+GD+GVGKS ++ RF +DS+  +   TIG  F  +TV+   +  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR +   YYRG+   IIVYD+T +E+F+ +K W+ E+ ++   ++   + GNKCDLTD 
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           + V    AK +AD I   F+ETSAK+++N+ + F+ ++  I 
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  321 bits (825), Expect = e-114
 Identities = 78/164 (47%), Positives = 109/164 (66%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
             FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAG
Sbjct: 5   CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAG 64

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QER+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL 
Sbjct: 65  QERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA 124

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           +K+ V ++ A+++AD+  + FMETSAK S+NV + FMA+   + 
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  319 bits (821), Expect = e-113
 Identities = 69/164 (42%), Positives = 109/164 (66%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +TV+LQ+WDTA
Sbjct: 12  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 71

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++  SY R +   ++VYD+T+  SF+   +W++++      +V  +LVGNK DL
Sbjct: 72  GQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDL 131

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           +DK+ VS E  +  A E+ + F+ETSAK   NV+Q F  + A +
Sbjct: 132 SDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  315 bits (809), Expect = e-111
 Identities = 54/175 (30%), Positives = 84/175 (48%), Gaps = 4/175 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK-TVKLQIWDT 59
               K++++GD   GK+ L   FA +++   Y  TIG+DF +R +   G   V LQIWD 
Sbjct: 4   MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDI 63

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY---ASENVNKLLVGN 116
            GQ     +   Y  GA G+++VYD+T+ +SF N++ W   + +    +       LVGN
Sbjct: 64  GGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGN 123

Query: 117 KCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           K DL   + +  E    F  E G      SAK   +V   F  + A+I     ++
Sbjct: 124 KIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  313 bits (805), Expect = e-111
 Identities = 68/173 (39%), Positives = 103/173 (59%), Gaps = 6/173 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             LFK++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V +QIWDTA
Sbjct: 5   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 64

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGN 116
           GQERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA     E+   +++GN
Sbjct: 65  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 124

Query: 117 KCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           K D+++ + VS E A+A+  + G  P+ ETSAKD+ NV  AF      +    
Sbjct: 125 KIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE 176

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  308 bits (791), Expect = e-109
 Identities = 70/177 (39%), Positives = 111/177 (62%), Gaps = 7/177 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-KTVKLQIWDT 59
             + K++++GDSGVGK+ L+ R+ +D Y   Y +TIG DF  + V  DG K   +Q+WDT
Sbjct: 6   KNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDT 65

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVG 115
           AGQERF+++  ++YRGA   ++VYDVT+  SF N+K W +E   +A+    E    +++G
Sbjct: 66  AGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILG 125

Query: 116 NKCDLTD-KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
           NK D  + KK+VS ++A+  A  +G IP   TSAK+++NV+ AF  +      +  +
Sbjct: 126 NKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQNQA 182

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  309 bits (794), Expect = e-109
 Identities = 58/193 (30%), Positives = 95/193 (49%), Gaps = 4/193 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTA
Sbjct: 13  QVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTA 72

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQE+F  +   YY  A   II++DVT + ++ NV  W  ++ R   EN+  +L GNK D+
Sbjct: 73  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDI 131

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP-AMNNARP 179
            D+KV     +  F  +  + + + SAK + N E+ F+ +   +      +  AM    P
Sbjct: 132 KDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAP 189

Query: 180 PTVQIKGQPVNQK 192
           P V +      Q 
Sbjct: 190 PEVVMDPALAAQY 202

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  304 bits (782), Expect = e-107
 Identities = 46/185 (24%), Positives = 84/185 (45%), Gaps = 9/185 (4%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFAD--DSYLDSYISTIGVDFKIRTVEQDGKTVKLQIW- 57
               K+ ++G++ VGKS L+  F      +L  Y  T GV+  +  V     TV ++++ 
Sbjct: 18  TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFL 77

Query: 58  -DTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY---ASENVNKLL 113
            DTAG + ++   S Y+ G +  I+V+DV+  ESF + K W   +          +  +L
Sbjct: 78  LDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVL 137

Query: 114 VGNKCDLTDKK-VVSYETAKAFADEIGIPFMETSAK-DSLNVEQAFMAMTADIKNRMASQ 171
           V NK DL  ++  V  + A+ +A    + F + SA     + +  F+++          +
Sbjct: 138 VANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDK 197

Query: 172 PAMNN 176
            A   
Sbjct: 198 VAAFQ 202

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  296 bits (760), Expect = e-104
 Identities = 49/175 (28%), Positives = 77/175 (44%), Gaps = 2/175 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D +FK++L+G+SGVGKS L   F       ++      D   R +  D + V L ++D  
Sbjct: 21  DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIW 80

Query: 61  GQERFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKC 118
            Q      +     +     +IV+ VTD+ SF+ V + L  +       ++  +LVGNK 
Sbjct: 81  EQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKS 140

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPA 173
           DL   + VS E  +  A  +    +ETSA    N  + F      I+ R     A
Sbjct: 141 DLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRNHA 195

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  291 bits (747), Expect = e-102
 Identities = 69/197 (35%), Positives = 105/197 (53%), Gaps = 5/197 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTA
Sbjct: 12  LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTA 70

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCD 119
           GQE +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK D
Sbjct: 71  GQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSD 130

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP 179
           L DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R        N + 
Sbjct: 131 LEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKK 190

Query: 180 PTVQIKGQPVNQKASCC 196
                K      +  CC
Sbjct: 191 KR---KSLAKRIRERCC 204

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  287 bits (736), Expect = e-100
 Identities = 47/167 (28%), Positives = 75/167 (44%), Gaps = 2/167 (1%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FK++L+G+SGVGKS L   F       ++      D   R +  D + V L ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 63  ERFR-TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDL 120
                 +     +     +IV+ VTD+ SF+ V + L  +       ++  +LVGNK DL
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              + VS E  +  A  +    +ETSA    N  + F      I+ R
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  282 bits (724), Expect = 2e-98
 Identities = 65/172 (37%), Positives = 99/172 (57%), Gaps = 2/172 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTA
Sbjct: 16  LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTA 74

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCD 119
           GQE +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK D
Sbjct: 75  GQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSD 134

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           L DK+ VS E AK  A++  + ++ETSAK   NV++ F  +  +I+ R    
Sbjct: 135 LEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  281 bits (721), Expect = 3e-98
 Identities = 59/182 (32%), Positives = 90/182 (49%), Gaps = 8/182 (4%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               KL+++G  GVGKS L ++F    ++  Y  TI  D   +    DG   +L I DTA
Sbjct: 7   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCD 119
           GQE F  +   Y R  HG ++V+ + D++SFN V +   +I R    ++   +LVGNK D
Sbjct: 66  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 125

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARP 179
           L  ++ V    A AF     + + E SAK  LNV++AF  +   ++             P
Sbjct: 126 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKY------QEQELP 179

Query: 180 PT 181
           P+
Sbjct: 180 PS 181

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  277 bits (712), Expect = 4e-97
 Identities = 66/166 (39%), Positives = 99/166 (59%), Gaps = 2/166 (1%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T    ++ + V  DG+ V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQ 62

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  AD+  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  277 bits (709), Expect = 5e-96
 Identities = 56/207 (27%), Positives = 95/207 (45%), Gaps = 40/207 (19%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVK------- 53
              +K +L+G+S VGKS ++LR   D++ ++  +TIG  F    V  +   +K       
Sbjct: 5   KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEK 64

Query: 54  ------------------------------LQIWDTAGQERFRTITSSYYRGAHGIIIVY 83
                                           IWDTAGQER+ +I   YYRGA   I+V+
Sbjct: 65  NNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVF 124

Query: 84  DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFM 143
           D+++  + +  K W+N++    S N   +LV NK D  +K  V     + +A +  + F+
Sbjct: 125 DISNSNTLDRAKTWVNQLK--ISSNYIIILVANKIDK-NKFQVDILEVQKYAQDNNLLFI 181

Query: 144 ETSAKDSLNVEQAFMAMTADIKNRMAS 170
           +TSAK   N++  F  +  +I   + +
Sbjct: 182 QTSAKTGTNIKNIFYMLAEEIYKNIIN 208

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  276 bits (707), Expect = 9e-96
 Identities = 57/199 (28%), Positives = 93/199 (46%), Gaps = 9/199 (4%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              +++++ G  GVGKS L+LRF   ++ D+YI TI   ++ + +  D     LQI DT 
Sbjct: 6   SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTT 64

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY--ASENVNKLLVGNKC 118
           G  +F  +        H  I+V+ VT ++S   +      I +   + E++  +LVGNKC
Sbjct: 65  GSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKC 124

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNAR 178
           D   ++ V    A+A A E    FMETSAK + NV++ F  +      R  S        
Sbjct: 125 DE-TQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDGKRS 183

Query: 179 PPTVQIKGQPVNQKASCCS 197
                 K +  ++    C+
Sbjct: 184 G-----KQKRTDRVKGKCT 197

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  273 bits (701), Expect = 4e-95
 Identities = 52/177 (29%), Positives = 90/177 (50%), Gaps = 2/177 (1%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
              K+ ++G   VGKS L ++F +  ++DSY  TI   F  + +  +G+   LQ+ DTAG
Sbjct: 5   KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAG 63

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDL 120
           Q+ +     +Y    +G I+VY VT  +SF  +K    ++        +  +LVGNK DL
Sbjct: 64  QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL 123

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNA 177
             ++V+SYE  KA A+     F+E+SAK++      F  +  + +    +     ++
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQGKSS 180

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  273 bits (700), Expect = 5e-95
 Identities = 63/169 (37%), Positives = 94/169 (55%), Gaps = 3/169 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
              +KL+++GD GVGKS L ++F    ++D Y  TI  D  ++  E D +   L + DTA
Sbjct: 16  LPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVLDTA 74

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCD 119
           GQE F  +   Y R   G +IVY VTD+ SF +V ++   I R    E+   +LV NK D
Sbjct: 75  GQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVD 134

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDS-LNVEQAFMAMTADIKNR 167
           L   + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 135 LMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  272 bits (697), Expect = 1e-94
 Identities = 55/169 (32%), Positives = 86/169 (50%), Gaps = 3/169 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +++ + G  GVGKS L+LRF   ++ +SYI T+   ++ + +  D     LQI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA--SENVNKLLVGNKCDLT 121
           +F  +        H  I+VY +T ++S   +K    +I       E++  +LVGNKCD +
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
             + V    A+A A      FMETSAK + NV++ F  +    K R  S
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 171

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  271 bits (694), Expect = 8e-94
 Identities = 46/172 (26%), Positives = 82/172 (47%), Gaps = 2/172 (1%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
              K++++G   VGK+ L  +F +  + + Y  T+   +  + V        L + DTAG
Sbjct: 23  RYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEFHLHLVDTAG 81

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDL 120
           Q+ +  +  S+  G HG ++VY VT   SF  ++    ++   +    V  +LVGNK DL
Sbjct: 82  QDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADL 141

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           + ++ V     K  A+  G  FME+SA+++   +  F  +  +I     S  
Sbjct: 142 SPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYG 193

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  269 bits (690), Expect = 9e-94
 Identities = 50/166 (30%), Positives = 78/166 (46%), Gaps = 3/166 (1%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           ++K+LL+G  GVGKS L   F             G  +  R++  DG+   L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGV-EDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQ 59

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLT 121
           +  R +           +IVY VTD+ SF    +   ++ R   +++V  +LVGNK DL 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
             + VS +  +A A      F+ETSA    NV+  F  +   I+ R
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  269 bits (690), Expect = 1e-93
 Identities = 60/163 (36%), Positives = 95/163 (58%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++++G  GVGKS L ++F   ++++ Y  TI  DF  + +E D     L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
           +F ++   Y +   G I+VY + +Q+SF ++K   ++I R    E V  +LVGNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++ VS    +A A+E G PFMETSAK    V++ F  +   + 
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  267 bits (685), Expect = 7e-93
 Identities = 54/172 (31%), Positives = 86/172 (50%), Gaps = 4/172 (2%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L++++L+GD GVGK+ L   FA     D +   +G D   RT+  DG+   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 63  ERFRTITS--SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCD 119
           E+     S  S  +G    +IVY + D+ SF +  +   ++ R + +++V  +LVGNK D
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
           L   + VS E  +A A      F+ETSA    NV + F  +   ++ R    
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRRDS 174

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  266 bits (683), Expect = 3e-92
 Identities = 61/195 (31%), Positives = 98/195 (50%), Gaps = 13/195 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   SE+V  +LVGNKCDL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL-P 122

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTV 182
            + V  + A+  A   GIPF+ETSAK    V+ AF  +  +I+            +    
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKK-- 180

Query: 183 QIKGQPVNQKASCCS 197
                   +  + C 
Sbjct: 181 --------KSKTKCV 187

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  264 bits (678), Expect = 1e-91
 Identities = 60/170 (35%), Positives = 94/170 (55%), Gaps = 3/170 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 80

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++  +  +I R   S++V  +LVGNKCDL  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL-P 139

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
            + V  + A   A   GIPF+ETSAK    VE AF  +  +I+     + 
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  262 bits (673), Expect = 4e-91
 Identities = 58/163 (35%), Positives = 92/163 (56%), Gaps = 3/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D    TI   ++ + V  DG+T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R   S++V  +LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-A 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            + V    A+  A   GIP++ETSAK    VE AF  +  +I+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  260 bits (666), Expect = 5e-90
 Identities = 65/167 (38%), Positives = 98/167 (58%), Gaps = 3/167 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL+L+G++ VGKS ++LRF  + + ++   TIG  F  + V  +  TVK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT-- 121
           RF ++   YYR A   ++VYDVT  +SF   + W+ E+   AS+++   LVGNK D    
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 122 -DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
             ++ V+ E  +  A+E G+ F ETSAK   NV   F+ +   I  +
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  260 bits (666), Expect = 5e-90
 Identities = 58/164 (35%), Positives = 94/164 (57%), Gaps = 3/164 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI   ++ + VE D +   L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 123 KKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I 
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  259 bits (664), Expect = 4e-89
 Identities = 52/177 (29%), Positives = 89/177 (50%), Gaps = 7/177 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKT---VKLQI 56
           +  ++++LIG+ GVGKS L   FA     +DS    +G D   RT+  DG++   + L +
Sbjct: 35  NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 94

Query: 57  WDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVG 115
           W+  G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVG
Sbjct: 95  WENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVG 152

Query: 116 NKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           NK DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R  S+ 
Sbjct: 153 NKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 209

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  258 bits (661), Expect = 6e-89
 Identities = 56/173 (32%), Positives = 85/173 (49%), Gaps = 4/173 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               KL + G +GVGKS L++RF    ++  Y  T+   ++      D + V ++I DTA
Sbjct: 26  SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTA 84

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCD 119
           GQE        + R   G ++VYD+TD+ SF  V    N +D     +NV  +LVGNK D
Sbjct: 85  GQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKAD 143

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDS-LNVEQAFMAMTADIKNRMASQ 171
           L   + VS E  +  A E+   F E SA     N+ + F  +  +++ R   Q
Sbjct: 144 LDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRRMVQ 196

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  249 bits (637), Expect = 2e-85
 Identities = 52/176 (29%), Positives = 88/176 (50%), Gaps = 7/176 (3%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKT---VKLQIWD 58
            ++++LIG+ GVGKS L   FA     +DS    +G D   RT+  DG++   + L +W+
Sbjct: 6   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWE 65

Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNK 117
             G+  +  +     +     +IVY +TD+ SF    +   ++ R   +E++  +LVGNK
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123

Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPA 173
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R  S+  
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKEK 179

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  240 bits (615), Expect = 4e-82
 Identities = 41/177 (23%), Positives = 80/177 (45%), Gaps = 15/177 (8%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLD--SYISTIGVDFKIRTVEQDGK---TVKLQIWD 58
            KL+++G++G GK+ LL +       D     +T+G+D K   ++   K    + L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNK 117
            AG+E F +    +       + VYD++  ++  + +K WL  I   AS +   +LVG  
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSP-VILVGTH 121

Query: 118 CDLTDKK---VVSYETAKAFADEIGIP-----FMETSAKDSLNVEQAFMAMTADIKN 166
            D++D+K       +  K   ++ G P         + ++S  + +    +  +  N
Sbjct: 122 LDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN 178

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  238 bits (609), Expect = 4e-81
 Identities = 42/169 (24%), Positives = 73/169 (43%), Gaps = 6/169 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
                L ++G  G GKS L ++F    ++  Y   +   +       D + V L++ DTA
Sbjct: 19  PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVMDTA 77

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA---SENVNKLLVGNK 117
             +  R     Y   AH  ++VY V  ++SF++   +L  +  +A     ++  LL+GNK
Sbjct: 78  DLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNK 136

Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL-NVEQAFMAMTADIK 165
            D+   + V+     A A   G  F E SA     +V+  F     + +
Sbjct: 137 LDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREAR 185

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  236 bits (604), Expect = 2e-80
 Identities = 37/169 (21%), Positives = 74/169 (43%), Gaps = 11/169 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ ++G+   GKS L+ R+   +Y+    S  G  FK + +  DG++  L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRFK-KEIVVDGQSYLLLIRDEGGPP 78

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDL-- 120
             +     +      ++ V+ + D+ SF  V  +   +  +  +  V  +LVG +  +  
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 121 TDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            + +V+    A+  + ++    + ET A   LNVE+ F  +   +    
Sbjct: 134 ANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALR 182

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  224 bits (572), Expect = 1e-75
 Identities = 43/175 (24%), Positives = 74/175 (42%), Gaps = 13/175 (7%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             +L ++GD+  GKS L+ RF   SY      T    +K + +  DG+T  + I + AG 
Sbjct: 7   ELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYK-KEMLVDGQTHLVLIREEAGA 64

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY---ASENVNKLLVG--NK 117
              +     +   A  +I V+ + D+ SF  V +   ++          +   LVG  ++
Sbjct: 65  PDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDR 119

Query: 118 CDLTDKKVVSYETAKAF-ADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
              +  +VV    A+A  AD     + ET A   LNV++ F  +   +      Q
Sbjct: 120 ISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQ 174

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  219 bits (558), Expect = 2e-69
 Identities = 36/205 (17%), Positives = 73/205 (35%), Gaps = 16/205 (7%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE--------QDGKTV 52
               K+ LIGD   GK+ LL +   +++      T G++   +            + K  
Sbjct: 39  LQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKEC 98

Query: 53  KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL 112
               WD  GQE        +   +   +++ D     + +N   WL  I++Y  ++   +
Sbjct: 99  LFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYGGKSP-VI 154

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           +V NK D      +  +        I   F   S K+   VE    ++ + + +      
Sbjct: 155 VVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLH---PDS 211

Query: 173 AMNNARPPT-VQIKGQPVNQKASCC 196
                  P+ +++K + V    +  
Sbjct: 212 IYGTPLAPSWIKVKEKLVEATTAQR 236

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  183 bits (466), Expect = 2e-59
 Identities = 42/161 (26%), Positives = 81/161 (50%), Gaps = 6/161 (3%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               K++++GD  VGK+CLLL F+      +Y+ T+  +F    ++   +   L +WDTA
Sbjct: 21  KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWDTA 79

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCD 119
           GQE +  +    Y  +  +++ + V ++ SF+N+  +W  EI  Y  +    +LVG K D
Sbjct: 80  GQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLVGLKVD 138

Query: 120 LTD--KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           L       V+ +       ++G + ++E S+   + + + F
Sbjct: 139 LRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  174 bits (442), Expect = 7e-56
 Identities = 57/181 (31%), Positives = 89/181 (49%), Gaps = 19/181 (10%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K + +GD  VGK+CLL+ +  +++   Y+ T+  +F    V  +G TV L +WDTAGQE
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQE 67

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    YRGA   I+ + +  + S+ NV  +W+ E+  YA   V  +LVG K DL D
Sbjct: 68  DYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRD 126

Query: 123 ----------KKVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
                        ++    +     IG P ++E S+K   NV+  F A       R+  Q
Sbjct: 127 DKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAI-----RVVLQ 181

Query: 172 P 172
           P
Sbjct: 182 P 182

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  174 bits (443), Expect = 1e-55
 Identities = 54/179 (30%), Positives = 94/179 (52%), Gaps = 17/179 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++L+GD G GK+ LL+ FAD ++ +SY  T+   + +  ++  GK V L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQD 93

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +   +Y  A  +++ +DVT   SF+N+  +W  E++ +  + V  ++VG K DL  
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRK 152

Query: 123 ------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNR 167
                        + V+Y   +  A  +G + ++E SA+   NV   F  A    + +R
Sbjct: 153 DKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSR 211

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  171 bits (434), Expect = 2e-54
 Identities = 56/182 (30%), Positives = 93/182 (51%), Gaps = 17/182 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+++GD   GK+CLL+ F+ D + + Y+ T+  ++ +  +E DGK V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y     I++ + V   +S  N+  +W+ E+  +   NV  +LV NK DL   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSD 144

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF-MAMTADIKNRMA 169
                      ++ V  +  +A A  I    ++E SAK    V + F  A  A ++ R  
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKRYG 204

Query: 170 SQ 171
           SQ
Sbjct: 205 SQ 206

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  168 bits (428), Expect = 2e-53
 Identities = 53/175 (30%), Positives = 86/175 (49%), Gaps = 16/175 (9%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               KL+++GD   GK+CLL+ F+ D + + Y+ T+  +  I  +E DGK V+L +WDTA
Sbjct: 23  AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTA 81

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCD 119
           GQE +  +    Y     I++ + +   +S  N+  +W  E+  +   NV  +LVGNK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKD 140

Query: 120 LTD------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT 161
           L              ++ V  E  +  A+ I    ++E SAK    V + F   T
Sbjct: 141 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMAT 195

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  165 bits (420), Expect = 3e-52
 Identities = 50/176 (28%), Positives = 87/176 (49%), Gaps = 17/176 (9%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           +   K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+
Sbjct: 26  NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTS 84

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCD 119
           G   +  +    Y  +  ++I +D++  E+ ++V  +W  EI  +   N   LLVG K D
Sbjct: 85  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSD 143

Query: 120 LTD------------KKVVSYETAKAFADEIG-IPFMETSAKDSLN-VEQAFMAMT 161
           L              +  VSY+     A +IG   ++E SA  S N V   F   T
Sbjct: 144 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVAT 199

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  162 bits (412), Expect = 7e-51
 Identities = 59/204 (28%), Positives = 99/204 (48%), Gaps = 23/204 (11%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K + +GD  VGK+C+L+ +  + +   YI T+  +F    V  DG+ V L +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQE 68

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    YRGA   ++ + +  + S+ NV  +W+ E+ R+ + NV  +LVG K DL D
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPIVLVGTKLDLRD 127

Query: 123 --------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNRMASQPA 173
                     V++    +    +IG   ++E S+K   NV+  F         ++  QP 
Sbjct: 128 DKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAI-----KVVLQP- 181

Query: 174 MNNARPPTVQIKGQPVNQKASCCS 197
                P   ++  +  N + S CS
Sbjct: 182 -----PRRKEVPRRRKNHRRSGCS 200

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score =  162 bits (411), Expect = 2e-50
 Identities = 41/221 (18%), Positives = 76/221 (34%), Gaps = 66/221 (29%)

Query: 10  GDSGVGKSCLLLRF---ADDSYLDSYISTIG-VDFKIRTVE--------------QDGKT 51
           G  G+GKSCL  RF   + D +   + S +   DF  R V               +D   
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 52  VKLQIW-------DTAGQERFRTITSSYYRGA---------------------------- 76
            K+ I        D   Q    T    Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 77  ---------HGIIIVYDVT--DQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTDKK 124
                     G ++  DV+     +F++  ++++ +    ++     ++V  KCD   ++
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            +      A + +  +  +ETSA+ ++NV+ AF  +   I 
Sbjct: 215 YIRDAHTFALSKK-NLQVVETSARSNVNVDLAFSTLVQLID 254

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  159 bits (405), Expect = 3e-50
 Identities = 50/172 (29%), Positives = 86/172 (50%), Gaps = 17/172 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  ++   + E D + ++L +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA-SFEIDTQRIELSLWDTSGSPY 67

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y  +  ++I +D++  E+ ++V  +W  EI  +   N   LLVG K DL   
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 126

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLN-VEQAFMAMT 161
                      +  VSY+     A +IG   ++E SA  S N V   F   T
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVAT 178

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  160 bits (406), Expect = 4e-50
 Identities = 52/168 (30%), Positives = 80/168 (47%), Gaps = 16/168 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y      +I + +    SF NV+ +W  E+  +   N   +LVG K DL D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRD 148

Query: 123 ------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                          ++Y    A A EIG + ++E SA     ++  F
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score =  152 bits (386), Expect = 3e-47
 Identities = 52/167 (31%), Positives = 80/167 (47%), Gaps = 16/167 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD- 122
           +  +    Y      +I + +    SF NV+ +W  E+  +   N   +LVG K DL D 
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDD 124

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                         ++Y    A A EIG + ++E SA     ++  F
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  152 bits (386), Expect = 4e-47
 Identities = 52/167 (31%), Positives = 80/167 (47%), Gaps = 16/167 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K +L+GD  VGK+ L++ +  + Y   YI T   D     V  DG+ V+LQ+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDE 80

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTD- 122
           F  +    Y      ++ + V    SF NV  +W+ EI  +       +LVG + DL + 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPIILVGTQSDLRED 139

Query: 123 -----------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
                      +K V  E AK  A+EI    ++E SA    N+++ F
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score =  151 bits (383), Expect = 2e-46
 Identities = 47/184 (25%), Positives = 89/184 (48%), Gaps = 17/184 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL+L+GD   GK+ +L   A D Y ++Y+ T+  ++    +E + + V+L +WDT+G  
Sbjct: 28  CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSP 86

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTD 122
            +  +    Y  +  +++ +D++  E+ ++  K+W  EI  Y   +   LL+G K DL  
Sbjct: 87  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRT 145

Query: 123 ------------KKVVSYETAKAFADEIG-IPFMETSAKDS-LNVEQAFMAMTADIKNRM 168
                       +  +SYE   A A ++G   ++E SA  S  ++   F   +    N+ 
Sbjct: 146 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP 205

Query: 169 ASQP 172
           +  P
Sbjct: 206 SPLP 209

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  147 bits (373), Expect = 2e-45
 Identities = 53/171 (30%), Positives = 87/171 (50%), Gaps = 16/171 (9%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             + K +++GD  VGK+CLL+ +A+D++ + Y+ T+  D    +V   GK   L ++DTA
Sbjct: 16  ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTA 74

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCD 119
           GQE +  +    Y      +I + V +  SF NVK +W+ E+  Y + NV  LL+G + D
Sbjct: 75  GQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQID 133

Query: 120 LTD------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           L D            +K +  E  +  A EIG   ++E SA     ++  F
Sbjct: 134 LRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score =  110 bits (277), Expect = 1e-29
 Identities = 51/171 (29%), Positives = 80/171 (46%), Gaps = 16/171 (9%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             L K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTA
Sbjct: 153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTA 211

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCD 119
           G E +  +    Y      +I + +    SF++V+  W  E+  +   N   +LVG K D
Sbjct: 212 GLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLD 270

Query: 120 LTD------------KKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF 157
           L D               ++Y    A A EIG + ++E SA     ++  F
Sbjct: 271 LRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 96.7 bits (241), Expect = 2e-25
 Identities = 34/183 (18%), Positives = 58/183 (31%), Gaps = 17/183 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDS----------YISTIGVDFKIRTVEQ-DGKTV 52
           FK++  G    GK+  L                        T+  DF    + +  G   
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 53  KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK- 111
           +  ++   GQ  +        RG  GI+ V D        N +   N  +  A   +   
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134

Query: 112 ---LLVG-NKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              +++  NK DL D   V          E   P +E  A +   V +    ++  +  R
Sbjct: 135 DVPIVIQVNKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLAR 193

Query: 168 MAS 170
           +A 
Sbjct: 194 VAG 196

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 83.4 bits (207), Expect = 1e-20
 Identities = 42/171 (24%), Positives = 71/171 (41%), Gaps = 14/171 (8%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L L+G    GK+  +   A   + +  I T+G  F +R + +    V +++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQP 78

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
           RFR++   Y RG   I+ + D  DQE     K  L+ +      + +  L++GNK DL  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 138

Query: 123 KKVVSYETAKAFA-DEIG-----IPFMETSAKDSLNVEQAFMAMTADIKNR 167
                 E  +      I            S K+  N++     +    K+R
Sbjct: 139 ALDEK-ELIEKMNLSAIQDREICC--YSISCKEKDNIDITLQWLIQHSKSR 186

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 83.5 bits (207), Expect = 2e-20
 Identities = 37/177 (20%), Positives = 74/177 (41%), Gaps = 17/177 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++G    GK+ +L +F+ +  +     TIG    +  +       +  +WD  GQE
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMN-EVVHTSPTIG--SNVEEIVI--NNTRFLMWDIGGQE 71

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GNKCD 119
             R+  ++YY     +I+V D TD+E  +  ++   E+ +  +    +   LL+  NK D
Sbjct: 72  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTRE---ELYKMLAHEDLRKAGLLIFANKQD 128

Query: 120 LTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNRMASQP 172
           + +   V+ E ++      I           A     + Q    M + +K R+    
Sbjct: 129 VKECMTVA-EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLEHHH 184

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 83.1 bits (206), Expect = 3e-20
 Identities = 32/172 (18%), Positives = 67/172 (38%), Gaps = 13/172 (7%)

Query: 4   FKLLLIGDSGVGKSCLLLRFA-DDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
             +L +G    GK+ ++ +    ++   + + TIG  F I   +    ++   ++D +GQ
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKS--SSLSFTVFDMSGQ 77

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI---DRYASENVNKLLVGNKCD 119
            R+R +   YY+    II V D +D+      K+ L+ +          +  L   NK D
Sbjct: 78  GRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMD 137

Query: 120 LTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
           L D      + ++    + I         + A     +++    +   I+  
Sbjct: 138 LRDAVTSV-KVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTV 188

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 82.2 bits (204), Expect = 3e-20
 Identities = 44/172 (25%), Positives = 71/172 (41%), Gaps = 17/172 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + + I TIG  F + TV    K +K Q+WD  G  
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLT 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GNKCD 119
             R     YY     +I V D  D++     K    E+     E   +   L+V  NK D
Sbjct: 63  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKS---ELVAMLEEEELRKAILVVFANKQD 119

Query: 120 LTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
           +      S E A +     +        +TSA     +++A   +   +K+R
Sbjct: 120 MEQAMTSS-EMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 170

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 81.2 bits (201), Expect = 1e-19
 Identities = 37/169 (21%), Positives = 69/169 (40%), Gaps = 11/169 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLG-EIVTTIPTIG--FNVETVEY--KNICFTVWDVGGQD 84

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
           + R +   Y++   G+I V D  D+E        L ++ +     +   L+  NK D+ +
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN 144

Query: 123 KKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
              VS E         +         T A     +      ++ ++  R
Sbjct: 145 AMPVS-ELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSKR 192

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 80.8 bits (200), Expect = 2e-19
 Identities = 40/169 (23%), Positives = 70/169 (41%), Gaps = 11/169 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + +   TIG  F + T+    K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIG--FNVETLSY--KNLKLNVWDLGGQT 73

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
             R     YY     +I V D TD++  +   + L+ + +    ++   L+  NK D   
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 133

Query: 123 KKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
               S E +K     E+       + +SA     + +    +   IK  
Sbjct: 134 ALSAS-EVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 79.9 bits (198), Expect = 2e-19
 Identities = 41/171 (23%), Positives = 76/171 (44%), Gaps = 17/171 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVGGQDK 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GNKCDL 120
            R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +   LLV  NK DL
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQDL 113

Query: 121 TDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
            +    + E         +         T A     + +    ++  ++N+
Sbjct: 114 PNAMNAA-EITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 79.6 bits (197), Expect = 5e-19
 Identities = 36/172 (20%), Positives = 72/172 (41%), Gaps = 17/172 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L R      + + + T+G    + T++   K +  ++WD  GQ 
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTVG--VNLETLQY--KNISFEVWDLGGQT 77

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GNKCD 119
             R     Y+     +I V D TD++     K    E+     E+  +   LL+  NK D
Sbjct: 78  GVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKH---ELYALLDEDELRKSLLLIFANKQD 134

Query: 120 LTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
           L D    + E A+      I       +++S+K    + +    +   ++ +
Sbjct: 135 LPDAASEA-EIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ 185

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 79.2 bits (196), Expect = 7e-19
 Identities = 42/170 (24%), Positives = 74/170 (43%), Gaps = 11/170 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +LL++G    GK+ +L +F  +  +D+   T+G  F I+T+E   +  KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEH--RGFKLNIWDVGGQK 73

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
             R+   +Y+    G+I V D  D++   + ++ L  +           L+  NK DL  
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 133

Query: 123 KKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNRM 168
               +    +A   D I          SA    ++      +  DI +R+
Sbjct: 134 ALSCN-AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 78.0 bits (193), Expect = 1e-18
 Identities = 43/169 (25%), Positives = 68/169 (40%), Gaps = 11/169 (6%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++LL+G    GK+ LL + A +  +     T G  F I++V+   +  KL +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASED-ISHITPTQG--FNIKSVQS--QGFKLNVWDIGGQR 71

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
           + R    SY+     +I V D  D++ F    Q L E+        V  L+  NK DL  
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT 131

Query: 123 KKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
               S E A+      I          SA     V+     +  ++  +
Sbjct: 132 AAPAS-EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 179

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 76.2 bits (187), Expect = 1e-17
 Identities = 37/172 (21%), Positives = 66/172 (38%), Gaps = 24/172 (13%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLD---SYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           ++LL+G    GKS +          +      ST         +      V  QIWD  G
Sbjct: 22  RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNK--IYKDDISNSSF-VNFQIWDFPG 78

Query: 62  QERFRTITS---SYYRGAHGIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGN 116
           Q  F   T      +RG   +I V D  D   E+   +   +++  +  + ++N  +  +
Sbjct: 79  QMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIH 137

Query: 117 KCDL--TDKKVVSY---------ETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           K D    D K+ +          + A A  +++ + F  TS  D  ++ +AF
Sbjct: 138 KVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDH-SIFEAF 188

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 73.4 bits (181), Expect = 1e-16
 Identities = 35/169 (20%), Positives = 71/169 (42%), Gaps = 17/169 (10%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++G    GK+ +L +F+ +  +     TIG    +  +       +  +WD  GQE
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMN-EVVHTSPTIG--SNVEEIVI--NNTRFLMWDIGGQE 76

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GNKCD 119
             R+  ++YY     +I+V D TD+E  +  ++   E+ +  +    +   LL+  NK D
Sbjct: 77  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTRE---ELYKMLAHEDLRKAGLLIFANKQD 133

Query: 120 LTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADI 164
           + +   V+ E ++      I           A     + Q    M + +
Sbjct: 134 VKECMTVA-EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 181

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 72.2 bits (178), Expect = 3e-16
 Identities = 29/120 (24%), Positives = 50/120 (41%), Gaps = 12/120 (10%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KLL +G    GK+ LL    +D  L +   T         +      +K   +D  G  +
Sbjct: 25  KLLFLGLDNAGKTTLLHMLKNDR-LATLQPTWH--PTSEELAI--GNIKFTTFDLGGHIQ 79

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCDL 120
            R +   Y+   +GI+ + D  D E F+  +    E+D   +     +V  +++GNK D 
Sbjct: 80  ARRLWKDYFPEVNGIVFLVDAADPERFDEARV---ELDALFNIAELKDVPFVILGNKIDA 136

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 72.3 bits (178), Expect = 3e-16
 Identities = 30/122 (24%), Positives = 52/122 (42%), Gaps = 12/122 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+ +G    GK+ LL    DD  L  ++ T+        +      +    +D  G  +
Sbjct: 27  KLVFLGLDNAGKTTLLHMLKDD-RLGQHVPTLH--PTSEELTI--AGMTFTTFDLGGHIQ 81

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGNKCDL 120
            R +  +Y    +GI+ + D  D E     K+   E+D   ++    NV  L++GNK D 
Sbjct: 82  ARRVWKNYLPAINGIVFLVDCADHERLLESKE---ELDSLMTDETIANVPILILGNKIDR 138

Query: 121 TD 122
            +
Sbjct: 139 PE 140

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 73.5 bits (180), Expect = 6e-16
 Identities = 39/171 (22%), Positives = 70/171 (40%), Gaps = 21/171 (12%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIG--VDFKIRTVEQDGKTVKLQIWDTAGQ 62
           KLLL+G SG GKS  +      +Y       +G  +D +   +   G  + L +WD  GQ
Sbjct: 5   KLLLMGRSGSGKSS-MRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGN-MTLNLWDCGGQ 62

Query: 63  ERF-----RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEI--DRYASENVNKLLVG 115
           + F            ++    +I V+DV   E   +++ +   +   R  S +    ++ 
Sbjct: 63  DVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLL 122

Query: 116 NKCDL--TDKKVVSYE----TAKAFADEIGIP---FMETSAKDSLNVEQAF 157
           +K DL   DK+   ++         + E G P      TS  D  ++ +A+
Sbjct: 123 HKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDE-SLYKAW 172

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 69.5 bits (170), Expect = 1e-14
 Identities = 41/175 (23%), Positives = 76/175 (43%), Gaps = 17/175 (9%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               ++L++G    GK+ +L +      + + I TIG  F + TVE   K +   +WD  
Sbjct: 163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KNISFTVWDVG 217

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK---LLV-GN 116
           GQ++ R +   Y++   G+I V D  D+E  N  ++   E+ R  +E+  +   LLV  N
Sbjct: 218 GQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFAN 274

Query: 117 KCDLTDKKVVSYETAKAFA-DEIG---IPFMETSAKDSLNVEQAFMAMTADIKNR 167
           K DL +    + E         +         T A     + +    ++  ++N+
Sbjct: 275 KQDLPNAMNAA-EITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 328

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 67.8 bits (166), Expect = 2e-14
 Identities = 24/127 (18%), Positives = 48/127 (37%), Gaps = 15/127 (11%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
            +++ G    GK+ LL     DS   + + +      +   + DG    + + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE---PLSAADYDGS--GVTLVDFPGHVK 103

Query: 65  FRTITSSYYR----GAHGIIIVYD-VTDQESFNNVKQWLNEI----DRYASENVNKLLVG 115
            R   S Y +       G+I + D   D +      ++L +I    +      ++ L+  
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 116 NKCDLTD 122
           NK +L  
Sbjct: 164 NKSELFT 170

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 67.5 bits (165), Expect = 3e-14
 Identities = 28/124 (22%), Positives = 51/124 (41%), Gaps = 9/124 (7%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE-QDGKTVKLQIWDTAGQE 63
            +L +G    GK+ L +R     Y D+  ++I         +  + +   L + D  G E
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSIT--DSSAIYKVNNNRGNSLTLIDLPGHE 65

Query: 64  RFR-TITSSYYRGAHGIIIVYDVTD-QESFNNVKQWLNEI--DRYASENVNKLLV-GNKC 118
             R  +   +   A  ++ V D    Q    +V ++L ++  D  A +N   LL+  NK 
Sbjct: 66  SLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ 125

Query: 119 DLTD 122
           D+  
Sbjct: 126 DIAM 129

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 66.7 bits (163), Expect = 6e-14
 Identities = 24/126 (19%), Positives = 48/126 (38%), Gaps = 15/126 (11%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           +++ G    GK+ LL     DS   + + +      +   + DG    + + D  G  + 
Sbjct: 15  IIIAGPQNSGKTSLLTLLTTDSVRPT-VVSQE---PLSAADYDGS--GVTLVDFPGHVKL 68

Query: 66  RTITSSYY----RGAHGIIIVYD-VTDQESFNNVKQWLNEI----DRYASENVNKLLVGN 116
           R   S Y     +   G+I + D   D +      ++L +I    +      ++ L+  N
Sbjct: 69  RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN 128

Query: 117 KCDLTD 122
           K +L  
Sbjct: 129 KSELFT 134

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 59.3 bits (143), Expect = 7e-11
 Identities = 27/168 (16%), Positives = 60/168 (35%), Gaps = 20/168 (11%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF 65
           +LL+G    GKS  + +    +        +               + L + +  GQ  +
Sbjct: 2   VLLMGVRRCGKSS-ICKVVFHNMQPLDTLYLESTSNPSLEHFSTL-IDLAVMELPGQLNY 59

Query: 66  R---TITSSYYRGAHGIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
                 +   ++    ++ V D  D+   +  N+   +    +  + ++N  ++ +K D 
Sbjct: 60  FEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDG 118

Query: 121 --TDKKVVSY---------ETAKAFADEIGIPFMETSAKDSLNVEQAF 157
              D KV +          E  +   D + + F  TS  D  ++ +AF
Sbjct: 119 LSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDH-SIYEAF 165

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 44.5 bits (105), Expect = 8e-06
 Identities = 34/163 (20%), Positives = 64/163 (39%), Gaps = 20/163 (12%)

Query: 6   LLLIGDSGVGKSCLLLRF--ADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG-- 61
           +++ G   VGKS LL     A         +T G    +   E        QI DT G  
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRG--INVGQFEDGYFRY--QIIDTPGLL 225

Query: 62  ----QERFRTITSSYYRGAH---GIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK--L 112
                ER      +     +    II ++D ++   F  +++ ++  +    E  +   L
Sbjct: 226 DRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFP-LEEQIHLFEEVHGEFKDLPFL 284

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ 155
           +V NK D+ D++ +  +  + F  E G+  ++ SA     ++ 
Sbjct: 285 VVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGIDL 325

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.5 bits (104), Expect = 9e-06
 Identities = 23/134 (17%), Positives = 48/134 (35%), Gaps = 29/134 (21%)

Query: 6   LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKI-----RTVEQDGKTVKLQIWDTA 60
           +L+ G  G GK+ +    A D  L   +    +DFKI     +        +++      
Sbjct: 153 VLIDGVLGSGKTWV----ALDVCLSYKV-QCKMDFKIFWLNLKNCNSPETVLEML----- 202

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
            Q+    I  ++   +      +    +   ++++  L  + +      N LLV     L
Sbjct: 203 -QKLLYQIDPNWTSRSD-----HSSNIKLRIHSIQAELRRLLKSKP-YENCLLV-----L 250

Query: 121 TDKKVVSYETAKAF 134
            +  V + +   AF
Sbjct: 251 LN--VQNAKAWNAF 262

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum} Length = 228

 Score = 42.1 bits (99), Expect = 3e-05
 Identities = 38/167 (22%), Positives = 63/167 (37%), Gaps = 21/167 (12%)

Query: 6   LLLIGDSGVGKSCLLLRF-ADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG--- 61
           ++L G   VGKS  +      +  + SY  T   +  +   +      K QI DT G   
Sbjct: 32  IILSGAPNVGKSSFMNIVSRANVDVQSYSFTT-KNLYVGHFDHKLN--KYQIIDTPGLLD 88

Query: 62  ---QERFRTITSSYYRGAH---GIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK--LL 113
              + R     ++    AH    I+ + D+++Q      +Q +N      S   NK  ++
Sbjct: 89  RAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQ-INLFYSIKSVFSNKSIVI 147

Query: 114 VGNKCDLTDKKVVSYETA---KAFADEI--GIPFMETSAKDSLNVEQ 155
             NK D  +   +S +     K   D +   I F   S    + VEQ
Sbjct: 148 GFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQ 194

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score = 39.0 bits (91), Expect = 5e-04
 Identities = 27/147 (18%), Positives = 46/147 (31%), Gaps = 34/147 (23%)

Query: 5   KLLLIGDSGVGKSCL---LL---RFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWD 58
            +L++G  GVGKS     L+                  G+   + +    G T+   I D
Sbjct: 38  TVLVLGKGGVGKSSTVNSLIGEQVVRVSP-----FQAEGLRPVMVSRTMGGFTIN--IID 90

Query: 59  TAG-----------QERFRTITSSYYRGAHGIIIVYD---VTDQESFNNVKQWLNEIDRY 104
           T G            E  +    +        +   D   V + +     KQ +  I + 
Sbjct: 91  TPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELD-----KQVVIAITQT 145

Query: 105 ASENVNK--LLVGNKCDLTDKKVVSYE 129
             + +    LLV      +    +SYE
Sbjct: 146 FGKEIWCKTLLVLTHAQFSPPDELSYE 172

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus} Length = 369

 Score = 38.8 bits (90), Expect = 5e-04
 Identities = 21/113 (18%), Positives = 47/113 (41%), Gaps = 12/113 (10%)

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           + F ++          ++ + D+ D         ++  + R+A++N   LLVGNK DL  
Sbjct: 59  DDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAADN-PILLVGNKADLLP 112

Query: 123 KKVVSYETA---KAFADEIGIPFME---TSAKDSLNVEQAFMAMTADIKNRMA 169
           + V   +     +  A+E+G+  ++    SA   + + +   A+    +    
Sbjct: 113 RSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVMEAINRYREGGDV 165

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A* Length = 270

 Score = 38.4 bits (89), Expect = 7e-04
 Identities = 20/141 (14%), Positives = 44/141 (31%), Gaps = 22/141 (15%)

Query: 5   KLLLIGDSGVGKSCL---LLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
            +L++G  GVGKS     ++   +     S   + G    + +  + G T+   I DT G
Sbjct: 41  TILVMGKGGVGKSSTVNSIIG--ERVVSISPFQSEGPRPVMVSRSRAGFTLN--IIDTPG 96

Query: 62  -----------QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN 110
                          ++      +    ++ V  +      N  K     I     + + 
Sbjct: 97  LIEGGYINDMALNIIKSFLLD--KTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIW 154

Query: 111 K--LLVGNKCDLTDKKVVSYE 129
              ++       +    + Y+
Sbjct: 155 NKAIVALTHAQFSPPDGLPYD 175

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A* Length = 413

 Score = 38.5 bits (89), Expect = 7e-04
 Identities = 21/168 (12%), Positives = 41/168 (24%), Gaps = 15/168 (8%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE--QDGKTVKLQIWD 58
             +  + + G++G GKS  +         +   +  GV          +      +  WD
Sbjct: 67  SSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWD 126

Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDV----TDQESFNNVKQWLNEIDRYASENVNKLLV 114
             G         +Y          YD     +      N       I            V
Sbjct: 127 LPGIGSTNFPPDTYLEKMK--FYEYDFFIIISATRFKKNDIDIAKAISMM---KKEFYFV 181

Query: 115 GNKCDLT----DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM 158
             K D                +    +I +  + T  ++ +     F+
Sbjct: 182 RTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFL 229

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	198
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	100.0
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	100.0
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.97
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.94
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.96
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.95
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.95
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.94
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.94
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.94
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.94
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.94
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.93
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.93
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.93
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.93
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.92
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.92
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.92
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.91
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.91
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.91
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.91
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.9
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.9
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.9
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.9
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.9
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.9
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.89
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.89
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.89
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.89
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.89
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.89
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.88
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.88
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.88
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.88
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.88
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.87
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.87
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.87
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.87
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.87
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.87
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.87
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.86
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.86
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.86
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.86
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.86
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.86
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.85
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.84
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.83
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.82
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.82
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.82
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.82
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.81
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.81
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.8
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.8
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.8
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.79
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.79
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.79
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.79
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.78
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.78
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.77
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.77
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.76
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.75
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.75
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.75
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.74
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.73
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.72
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.7
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.68
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.67
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.66
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.65
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.64
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.64
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.63
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.62
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.61
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.59
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.58
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.56
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.48
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.45
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.41
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.39
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.37
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.3
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.14
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.14
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.11
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.07
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.03
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.99
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.91
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.7
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.64
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.59
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.59
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.56
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.4
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.37
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.29
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.23
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.19
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.04
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.92
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.92
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.83
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.72
3cwq_A	209	Para family chromosome partitioning protein; alpha	97.68
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.63
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.61
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.53
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.46
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.46
2xxa_A	433	Signal recognition particle protein; protein trans	97.43
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.42
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.4
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.38
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.37
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.34
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.34
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.33
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.32
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.31
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.31
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.3
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.29
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.26
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.26
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.24
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.24
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.24
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.23
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.2
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.19
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.18
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.18
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.17
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.17
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.16
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.14
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.13
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.12
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.11
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.1
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.09
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.09
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.08
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.08
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.08
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.07
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.07
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.06
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.06
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.06
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.06
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.05
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.04
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.04
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.04
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.03
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.02
1g6h_A	257	High-affinity branched-chain amino acid transport	97.02
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.02
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.02
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.01
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.01
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.01
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.01
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.01
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.0
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.0
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.0
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.0
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.99
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.98
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.98
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.98
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.97
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.97
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.97
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.97
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.97
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.96
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.96
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.96
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.95
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.95
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.95
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.94
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.94
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.93
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.93
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.92
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.92
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.91
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.91
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.9
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.89
1via_A	175	Shikimate kinase; structural genomics, transferase	96.89
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.88
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.87
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.85
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.85
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.85
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.84
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.82
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.82
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.81
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.81
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.81
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.8
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.8
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.8
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.79
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.79
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.79
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.78
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.77
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.76
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.76
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.76
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.76
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.76
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.75
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.75
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.74
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.74
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.73
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.73
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.72
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.72
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.72
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.72
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.72
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.71
3co5_A	143	Putative two-component system transcriptional RES	96.71
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.71
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.7
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.7
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.7
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.7
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.69
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.68
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.68
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.67
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.67
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.67
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.66
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.66
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.65
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.65
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.65
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.64
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.64
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.63
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.6
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.6
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.59
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.58
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.58
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.57
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.56
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.54
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.54
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.54
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.53
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.51
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.51
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.51
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.51
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.51
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.49
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.48
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.47
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.47
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.47
2og2_A	359	Putative signal recognition particle receptor; nuc	96.45
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.44
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.44
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.44
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.42
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.42
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.41
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.41
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.4
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.39
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.37
3bos_A	242	Putative DNA replication factor; P-loop containing	96.36
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.34
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.33
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.31
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.26
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.24
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.22
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.21
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.2
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.16
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.14
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.13
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.13
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.12
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.12
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.1
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.1
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.1
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.09
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.09
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.07
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.04
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.02
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.98
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.95
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.95
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.94
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.94
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.92
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.92
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.91
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.9
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.89
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.88
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.88
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.87
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.86
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.83
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.83
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.82
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.82
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.82
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.82
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.81
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.81
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.81
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.8
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.79
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.79
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.79
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.78
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.77
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.77
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.76
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.75
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.73
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.7
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.7
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.7
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.69
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.68
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.66
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.64
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.63
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.6
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.59
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.55
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.55
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.53
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.52
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.51
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.51
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.51
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.48
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.48
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.46
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.42
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.41
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.41
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.38
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.37
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.35

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=2.6e-44  Score=260.97  Aligned_cols=196  Identities=35%  Similarity=0.619  Sum_probs=146.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+|+|.+|||||||+++|+.+.+...+.+|.+.++....+..++..+++.||||+|++.+..++..+++.++++++
T Consensus        12 k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~il   91 (216)
T 4dkx_A           12 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVV   91 (216)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEE
T ss_pred             CcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEE
Confidence            35899999999999999999999999999999999999988899999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++++|..+..|+..+......+.|+++|+||+|+.+.+.+..++++++++.+++.|+++||++|.||+++|++|.
T Consensus        92 v~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~  171 (216)
T 4dkx_A           92 VYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA  171 (216)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHH
Confidence            99999999999999999999888888899999999999998888999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCcCCCCC-CCCccccCCCCCCCCCCccC
Q 043946          162 ADIKNRMASQPAMNNA-RPPTVQIKGQPVNQKASCCS  197 (198)
Q Consensus       162 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~cc~  197 (198)
                      +.+.+........... ..........++.++++|||
T Consensus       172 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~C  208 (216)
T 4dkx_A          172 AALPGMESTQDRSREDMIDIKLEKPQEQPVSEGGCSC  208 (216)
T ss_dssp             HHC----------------------------------
T ss_pred             HHHHhhhcccccccccccccccCCCCCCCCCCCCCce
Confidence            8886544332222111 11122222333445566777

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=8e-40  Score=236.15  Aligned_cols=197  Identities=70%  Similarity=1.116  Sum_probs=160.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vi   85 (206)
T 2bcg_Y            6 DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGII   85 (206)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEE
Confidence            35799999999999999999999998888888888888888888889998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|
T Consensus        86 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  165 (206)
T 2bcg_Y           86 IVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTM  165 (206)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988776679999999999998777778888999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCcCCCC----CCCCccccCCCCCCCCCCccC
Q 043946          161 TADIKNRMASQPAMNN----ARPPTVQIKGQPVNQKASCCS  197 (198)
Q Consensus       161 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~cc~  197 (198)
                      .+.+.+..........    +....+.+...+.+++++|||
T Consensus       166 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc~  206 (206)
T 2bcg_Y          166 ARQIKESMSQQNLNETTQKKEDKGNVNLKGQSLTNTGGCCC  206 (206)
T ss_dssp             HHHHHHHCCHHHHHTTSGGGCCCSCCCTTCC----------
T ss_pred             HHHHHHHHhhcccccccccCCCccceeccccccccCCCCCC
Confidence            9999876543321111    111333333334457778998

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=7.9e-38  Score=225.62  Aligned_cols=194  Identities=36%  Similarity=0.659  Sum_probs=150.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.++|+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   86 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVL   86 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEE
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEE
Confidence            57899999999999999999999988887888888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-HhCCcEEEEeccCCCCHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFAD-EIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~~i~~~  156 (198)
                      |+|++++.++..+..|+..+.....    .+.|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++++
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  165 (207)
T 1vg8_A           87 VFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQA  165 (207)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHH
Confidence            9999999999999999888876543    468999999999997 44566778888877 56789999999999999999


Q ss_pred             HHHHHHHHHHhhhcCcCCCCCCCCccccCC-C-CCCCCCCccC
Q 043946          157 FMAMTADIKNRMASQPAMNNARPPTVQIKG-Q-PVNQKASCCS  197 (198)
Q Consensus       157 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~cc~  197 (198)
                      |++|.+.+.++........ ..+..+.+.+ . ..+++++|||
T Consensus       166 ~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~c~c  207 (207)
T 1vg8_A          166 FQTIARNALKQETEVELYN-EFPEPIKLDKNERAKASAESCSC  207 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-HSCCCC-----------------
T ss_pred             HHHHHHHHHHhcccccccc-CCCccccCCcccccccCCCCCCC
Confidence            9999999987655332211 1122222332 2 3367777888

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=3.8e-36  Score=214.98  Aligned_cols=171  Identities=84%  Similarity=1.295  Sum_probs=156.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   94 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIV   94 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEE
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEE
Confidence            57899999999999999999999988888888888888888999999988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|++|.
T Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  174 (196)
T 3tkl_A           95 VYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA  174 (196)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999999888777899999999999988888888899999999999999999999999999999999


Q ss_pred             HHHHHhhhcCc
Q 043946          162 ADIKNRMASQP  172 (198)
Q Consensus       162 ~~~~~~~~~~~  172 (198)
                      +.+.++.....
T Consensus       175 ~~i~~~~~~~~  185 (196)
T 3tkl_A          175 AEIKKRMGPGA  185 (196)
T ss_dssp             HHHHHHC----
T ss_pred             HHHHHHhcccc
Confidence            99988765443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.3e-36  Score=221.97  Aligned_cols=170  Identities=50%  Similarity=0.802  Sum_probs=145.4

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..++..+|++|
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi   90 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGAL   90 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEE
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEE
Confidence            35799999999999999999999998888778888888888888889998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
T Consensus        91 lV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  170 (223)
T 3cpj_B           91 IVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL  170 (223)
T ss_dssp             EEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999887766679999999999998767778888899999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.++...
T Consensus       171 ~~~i~~~~~~  180 (223)
T 3cpj_B          171 INTIYQKVSK  180 (223)
T ss_dssp             HHHHTTCC--
T ss_pred             HHHHHHHhhh
Confidence            9998765443

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=3.7e-36  Score=216.66  Aligned_cols=169  Identities=38%  Similarity=0.638  Sum_probs=148.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+|+|.+|||||||+++|.+..+...+.++.+... ...+.+++..+.+.+||+||++.+...+..++..+|++++
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~   91 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   91 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEE
Confidence            368999999999999999999998887777777766444 4567788888899999999999998899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|
T Consensus        92 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  171 (206)
T 2bov_A           92 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDL  171 (206)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999988877653 478999999999998777788889999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.++....
T Consensus       172 ~~~i~~~~~~~  182 (206)
T 2bov_A          172 MREIRARKMED  182 (206)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHccccc
Confidence            99998765443

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=2.2e-36  Score=214.06  Aligned_cols=170  Identities=60%  Similarity=1.075  Sum_probs=126.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   85 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   85 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEE
Confidence            35799999999999999999999988877777888887888788888988899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|
T Consensus        86 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  165 (183)
T 2fu5_C           86 LVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTL  165 (183)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999998888766679999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.++..+
T Consensus       166 ~~~i~~~~~~  175 (183)
T 2fu5_C          166 ARDIKAKMDK  175 (183)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhhc
Confidence            9999876554

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=1.6e-35  Score=210.84  Aligned_cols=168  Identities=52%  Similarity=0.966  Sum_probs=153.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+...+..+.+.+||+||++.+...+..++..+|++|
T Consensus        20 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   99 (189)
T 2gf9_A           20 DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFL   99 (189)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEE
Confidence            46799999999999999999999998887777888887887788888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++.++++.++++++++||++|.|++++|++|
T Consensus       100 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  179 (189)
T 2gf9_A          100 LMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL  179 (189)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999998888766679999999999998777777888999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.++.
T Consensus       180 ~~~i~~~~  187 (189)
T 2gf9_A          180 VDVICEKM  187 (189)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99987754

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=8.4e-36  Score=214.46  Aligned_cols=170  Identities=49%  Similarity=0.855  Sum_probs=154.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||.+.+...+..++..+|++|
T Consensus        24 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  103 (201)
T 2ew1_A           24 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI  103 (201)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            35799999999999999999999998888788888888888888889998899999999999999989999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|
T Consensus       104 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  183 (201)
T 2ew1_A          104 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL  183 (201)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988776779999999999998777778888889999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.++...
T Consensus       184 ~~~i~~~~~~  193 (201)
T 2ew1_A          184 ACRLISEARQ  193 (201)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHhh
Confidence            9999876543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=2.2e-35  Score=212.31  Aligned_cols=171  Identities=51%  Similarity=0.957  Sum_probs=155.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+...+..+.+.+||+||.+.+...+..++..+|++|
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   85 (203)
T 1zbd_A            6 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFI   85 (203)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEE
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEE
Confidence            46799999999999999999999998887777888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|
T Consensus        86 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  165 (203)
T 1zbd_A           86 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL  165 (203)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999888766679999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.++..+.
T Consensus       166 ~~~i~~~~~~~  176 (203)
T 1zbd_A          166 VDVICEKMSES  176 (203)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99998776554

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=1.8e-35  Score=211.01  Aligned_cols=170  Identities=51%  Similarity=0.873  Sum_probs=150.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   98 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   98 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEE
Confidence            35789999999999999999999998887777788888888888889998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|
T Consensus        99 ~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  178 (191)
T 2a5j_A           99 LVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINT  178 (191)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999888766789999999999998777778888999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.++...
T Consensus       179 ~~~i~~~~~~  188 (191)
T 2a5j_A          179 AKEIYRKIQQ  188 (191)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999876543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=1.8e-35  Score=209.87  Aligned_cols=172  Identities=47%  Similarity=0.807  Sum_probs=156.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus         8 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   87 (186)
T 2bme_A            8 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGAL   87 (186)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEE
Confidence            35799999999999999999999998888788888888888888888998889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++|++|
T Consensus        88 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  167 (186)
T 2bme_A           88 LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQC  167 (186)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999988887766789999999999997767778888899999999999999999999999999999


Q ss_pred             HHHHHHhhhcCc
Q 043946          161 TADIKNRMASQP  172 (198)
Q Consensus       161 ~~~~~~~~~~~~  172 (198)
                      .+.+.++..+..
T Consensus       168 ~~~~~~~~~~~~  179 (186)
T 2bme_A          168 ARKILNKIESGE  179 (186)
T ss_dssp             HHHHHHHHHSCC
T ss_pred             HHHHHHHhhhcC
Confidence            999987665443

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=9.6e-36  Score=214.16  Aligned_cols=169  Identities=50%  Similarity=0.869  Sum_probs=145.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAI  106 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEE
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEE
Confidence            46799999999999999999999998887777788877787888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++.+++...++ +++++||++|.|++++|++
T Consensus       107 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~  186 (201)
T 2hup_A          107 LAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLR  186 (201)
T ss_dssp             EEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999999999998887667799999999999987677788899999999999 9999999999999999999


Q ss_pred             HHHHHHHhhh
Q 043946          160 MTADIKNRMA  169 (198)
Q Consensus       160 l~~~~~~~~~  169 (198)
                      |.+.+.++..
T Consensus       187 l~~~i~~~~~  196 (201)
T 2hup_A          187 VATELIMRHG  196 (201)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhcc
Confidence            9999886543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.8e-35  Score=207.03  Aligned_cols=170  Identities=62%  Similarity=0.976  Sum_probs=153.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   86 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVI   86 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEE
Confidence            45799999999999999999999998888788888888888888999998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+..... +.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  165 (181)
T 3tw8_B           87 VVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCI  165 (181)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHCT-TSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999998877653 68999999999998877788889999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.+...+.
T Consensus       166 ~~~~~~~~~~~  176 (181)
T 3tw8_B          166 TELVLRAKKDN  176 (181)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhhhh
Confidence            99998766543

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=1.1e-35  Score=207.94  Aligned_cols=166  Identities=38%  Similarity=0.750  Sum_probs=144.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|+++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   83 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEE
Confidence            46799999999999999999999998887778888888887788888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++..+++++++||++|.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  163 (170)
T 1z08_A           84 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999988877665678999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       164 ~~~~~~  169 (170)
T 1z08_A          164 CKRMIE  169 (170)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            988764

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=2e-35  Score=206.47  Aligned_cols=167  Identities=56%  Similarity=1.003  Sum_probs=145.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |+.+||+|+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|+++
T Consensus         1 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1g16_A            1 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGII   80 (170)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEE
T ss_pred             CCceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEE
Confidence            57899999999999999999999998887778888887888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+. .+....++...+++.++++++++||++|.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l  159 (170)
T 1g16_A           81 LVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL  159 (170)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC-cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999998888776689999999999994 44567888888999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.++.
T Consensus       160 ~~~~~~~~  167 (170)
T 1g16_A          160 AKLIQEKI  167 (170)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            99987643

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=2.8e-35  Score=207.32  Aligned_cols=166  Identities=48%  Similarity=0.877  Sum_probs=151.4

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus        13 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   92 (179)
T 1z0f_A           13 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   92 (179)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEE
Confidence            35799999999999999999999998887777888888888888888988899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++.+++..++++++++||++|.|++++|++|
T Consensus        93 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  172 (179)
T 1z0f_A           93 MVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEA  172 (179)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999998888776789999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       173 ~~~i~~  178 (179)
T 1z0f_A          173 AKKIYQ  178 (179)
T ss_dssp             HHHHC-
T ss_pred             HHHHhh
Confidence            987753

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=2e-35  Score=212.31  Aligned_cols=172  Identities=48%  Similarity=0.813  Sum_probs=146.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  102 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGAL  102 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEE
Confidence            35799999999999999999999998887777888887888888888988899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|++|
T Consensus       103 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l  182 (200)
T 2o52_A          103 LVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC  182 (200)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999998887766789999999999998767778888899999999999999999999999999999


Q ss_pred             HHHHHHhhhcCc
Q 043946          161 TADIKNRMASQP  172 (198)
Q Consensus       161 ~~~~~~~~~~~~  172 (198)
                      .+.+.++..+..
T Consensus       183 ~~~i~~~~~~~~  194 (200)
T 2o52_A          183 ARTILNKIDSGE  194 (200)
T ss_dssp             HHHHHHHHHTTS
T ss_pred             HHHHHHHHhcCC
Confidence            999987665543

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=5.8e-35  Score=206.26  Aligned_cols=165  Identities=44%  Similarity=0.727  Sum_probs=150.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        11 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (181)
T 2efe_B           11 INAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAII   90 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEE
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEE
Confidence            46899999999999999999999988887777888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|.
T Consensus        91 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  170 (181)
T 2efe_B           91 VFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIA  170 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999998887666899999999999987777788899999999999999999999999999999998


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       171 ~~~~~  175 (181)
T 2efe_B          171 RRLPR  175 (181)
T ss_dssp             HTCC-
T ss_pred             HHHHh
Confidence            87754

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1e-34  Score=204.77  Aligned_cols=167  Identities=52%  Similarity=0.979  Sum_probs=142.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGI   79 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~   79 (198)
                      +..+||+++|.+|||||||+++|.+..+. ..+.++.+.++....+..++..+.+.+||+||++.+...+..++..+|++
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~i   87 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHAL   87 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEE
Confidence            35789999999999999999999987764 45667777777777778898889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |+|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++
T Consensus        88 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  167 (180)
T 2g6b_A           88 LLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTA  167 (180)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999888876668999999999999877777888889999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 043946          160 MTADIKNR  167 (198)
Q Consensus       160 l~~~~~~~  167 (198)
                      |.+.+.++
T Consensus       168 l~~~~~~~  175 (180)
T 2g6b_A          168 IAKELKRR  175 (180)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHHH
Confidence            99988754

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.6e-36  Score=214.58  Aligned_cols=169  Identities=50%  Similarity=0.960  Sum_probs=154.4

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+...+..+.+.+||+||++.+..++..++..+|++|
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  100 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFI  100 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEE
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEE
Confidence            36799999999999999999999998887788888887888888888877789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++|
T Consensus       101 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  180 (191)
T 3dz8_A          101 LMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERL  180 (191)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999988776789999999999998777788899999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.++..
T Consensus       181 ~~~i~~~~~  189 (191)
T 3dz8_A          181 VDAICDKMS  189 (191)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHhcc
Confidence            999987644

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=6.2e-35  Score=208.42  Aligned_cols=169  Identities=46%  Similarity=0.767  Sum_probs=153.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||.+.+...+..++..+|++|
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi  102 (193)
T 2oil_A           23 NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGAL  102 (193)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEE
Confidence            35799999999999999999999998887777788787888788888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|++|
T Consensus       103 ~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  182 (193)
T 2oil_A          103 LVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETV  182 (193)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999988877666679999999999998766778888999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.++..
T Consensus       183 ~~~i~~~~~  191 (193)
T 2oil_A          183 LKEIFAKVS  191 (193)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999887654

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=5.5e-35  Score=203.83  Aligned_cols=165  Identities=35%  Similarity=0.656  Sum_probs=149.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            46899999999999999999999998888788888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+.... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  161 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  161 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            9999999999999999998887665 468999999999998766777888999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       162 ~~~~~~  167 (168)
T 1z2a_A          162 AEKHLQ  167 (168)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            988764

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=1.5e-34  Score=201.96  Aligned_cols=163  Identities=42%  Similarity=0.746  Sum_probs=149.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|++|||||||+++|.+..+...+.++.+.+.....+...+....+.+||+||.+.+...+..++..+|++++
T Consensus         5 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   84 (170)
T 1z0j_A            5 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   84 (170)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEE
Confidence            57899999999999999999999988877788888888888888889888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        85 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~  164 (170)
T 1z0j_A           85 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEIS  164 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            99999999999999999999887667899999999999987777788889999999999999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       165 ~~i  167 (170)
T 1z0j_A          165 RRI  167 (170)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            765

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=1.1e-34  Score=202.54  Aligned_cols=163  Identities=48%  Similarity=0.814  Sum_probs=148.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   84 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEE
Confidence            46899999999999999999999988877777888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|.
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~  164 (170)
T 1r2q_A           85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIA  164 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999988887667899999999999977667778888999999999999999999999999999998


Q ss_pred             HHH
Q 043946          162 ADI  164 (198)
Q Consensus       162 ~~~  164 (198)
                      +.+
T Consensus       165 ~~~  167 (170)
T 1r2q_A          165 KKL  167 (170)
T ss_dssp             HTS
T ss_pred             HHH
Confidence            765

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.6e-35  Score=209.69  Aligned_cols=167  Identities=49%  Similarity=0.919  Sum_probs=144.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||.+.+...+..++..+|++|
T Consensus        24 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii  103 (192)
T 2il1_A           24 DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGII  103 (192)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEE
Confidence            35789999999999999999999998887777888888888888888988899999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.. +++++++||++|.|++++|++
T Consensus       104 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~  183 (192)
T 2il1_A          104 LVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLK  183 (192)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999888877778999999999999877777888888888874 789999999999999999999


Q ss_pred             HHHHHHHh
Q 043946          160 MTADIKNR  167 (198)
Q Consensus       160 l~~~~~~~  167 (198)
                      |.+.+.++
T Consensus       184 l~~~i~~~  191 (192)
T 2il1_A          184 LVDDILKK  191 (192)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99988753

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=2.3e-34  Score=205.20  Aligned_cols=170  Identities=41%  Similarity=0.787  Sum_probs=150.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeE-EEEEEECCe---------EEEEEEEeCCCccccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFK-IRTVEQDGK---------TVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~g~~~~~~~~~   70 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++. ...+..++.         .+.+.+||+||.+.+...+.
T Consensus         9 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   88 (195)
T 3bc1_A            9 DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTT   88 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHH
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHH
Confidence            35799999999999999999999998887777788777766 566666655         68999999999999999999


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      .++..+|++|+|+|++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++
T Consensus        89 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  168 (195)
T 3bc1_A           89 AFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAAN  168 (195)
T ss_dssp             HTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTT
T ss_pred             HHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCC
Confidence            999999999999999999999999999988877654 5789999999999987667788889999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhc
Q 043946          150 SLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +.|++++|++|.+.+.++...
T Consensus       169 ~~~v~~l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          169 GTNISHAIEMLLDLIMKRMER  189 (195)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhhh
Confidence            999999999999999876554

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=7e-35  Score=203.57  Aligned_cols=163  Identities=40%  Similarity=0.706  Sum_probs=148.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            36899999999999999999999988877788888888888888889888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC---CcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK---KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~  158 (198)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+...   +.+..++...++...+++++++||++|.|++++|+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999888876678999999999999765   56777888889999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          159 AMTADI  164 (198)
Q Consensus       159 ~l~~~~  164 (198)
                      +|.+.+
T Consensus       162 ~l~~~i  167 (170)
T 1ek0_A          162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHH
Confidence            998754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.6e-35  Score=208.63  Aligned_cols=166  Identities=41%  Similarity=0.729  Sum_probs=150.3

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||.+.+...+..++..+|++|
T Consensus        21 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  100 (192)
T 2fg5_A           21 IRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAV  100 (192)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEE
Confidence            35799999999999999999999998877777888888888788888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..+++.++++..+++++++||++|.|++++|++|
T Consensus       101 lV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  180 (192)
T 2fg5_A          101 IVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGI  180 (192)
T ss_dssp             EEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHH
Confidence            99999999999999999999988776679999999999998766778889999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       181 ~~~i~~  186 (192)
T 2fg5_A          181 SRQIPP  186 (192)
T ss_dssp             HHTCC-
T ss_pred             HHHHHh
Confidence            887643

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=3.1e-34  Score=202.70  Aligned_cols=166  Identities=31%  Similarity=0.502  Sum_probs=148.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~   83 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   83 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEE
Confidence            468999999999999999999998888878888877666 6777888988999999999999999899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  163 (181)
T 3t5g_A           84 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI  163 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHH
Confidence            9999999999999999988866543 478999999999998888888999999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.+..
T Consensus       164 ~~~~~~~~  171 (181)
T 3t5g_A          164 ILEAEKMD  171 (181)
T ss_dssp             HHHHHTC-
T ss_pred             HHHHHHhc
Confidence            99988644

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=3.7e-34  Score=202.59  Aligned_cols=164  Identities=37%  Similarity=0.622  Sum_probs=148.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   95 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   95 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            468999999999999999999999888878878777666 6777888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc-CCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK-DSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~-~~~~i~~~~~~  159 (198)
                      |||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..+++..++..++++++++||+ ++.|++++|++
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~  175 (183)
T 3kkq_A           96 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHD  175 (183)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHH
Confidence            99999999999999999888664 33578999999999998877888999999999999999999999 99999999999


Q ss_pred             HHHHHHH
Q 043946          160 MTADIKN  166 (198)
Q Consensus       160 l~~~~~~  166 (198)
                      |.+.+.+
T Consensus       176 l~~~i~~  182 (183)
T 3kkq_A          176 LVRVIRQ  182 (183)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9998875

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=3.8e-35  Score=212.52  Aligned_cols=167  Identities=32%  Similarity=0.606  Sum_probs=141.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..++..+|++|+
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~il   86 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVL   86 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEE
Confidence            468999999999999999999998888777777776444 3556678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--------CCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKV--------VSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+...        +..+++..++..+++ +++++||++|.
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~  165 (212)
T 2j0v_A           87 AFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQ  165 (212)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCC
Confidence            99999999999886 79888877654 789999999999866443        367888889999996 99999999999


Q ss_pred             CHHHHHHHHHHHHHHhhhc
Q 043946          152 NVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       152 ~i~~~~~~l~~~~~~~~~~  170 (198)
                      |++++|++|.+.+.+....
T Consensus       166 gi~~l~~~l~~~~~~~~~~  184 (212)
T 2j0v_A          166 NVKAVFDTAIKVVLQPPRR  184 (212)
T ss_dssp             THHHHHHHHHHHHHCC---
T ss_pred             CHHHHHHHHHHHHhhhhhh
Confidence            9999999999999865443

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=3.8e-34  Score=200.95  Aligned_cols=169  Identities=31%  Similarity=0.431  Sum_probs=136.3

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--ccccccccccCccE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--FRTITSSYYRGAHG   78 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~~~~~~~~d~   78 (198)
                      ++.+||+|+|++|||||||+++|.+..+...+ ++.+.+.....+.+++..+.+.+||+||.+.  +..+...++..+|+
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~   80 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSA   80 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCE
Confidence            46799999999999999999999987765433 3455566677788888888999999999887  45667788899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            999999999999999999988887652 3478999999999998777788888888999999999999999999999999


Q ss_pred             HHHHHHHHHhhhc
Q 043946          158 MAMTADIKNRMAS  170 (198)
Q Consensus       158 ~~l~~~~~~~~~~  170 (198)
                      ++|.+.+.++...
T Consensus       161 ~~l~~~~~~~~~~  173 (175)
T 2nzj_A          161 EGVVRQLRLRRRD  173 (175)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhhcc
Confidence            9999998775543

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=7.5e-34  Score=205.63  Aligned_cols=168  Identities=55%  Similarity=0.996  Sum_probs=151.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~   98 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIIL   98 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEE
Confidence            46899999999999999999999988877888888888888888899988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+......+.|+++|+||+|+ ..+.+..++...++..++++++++||++|.|++++|++|.
T Consensus        99 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  177 (213)
T 3cph_A           99 VYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  177 (213)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999999999888876667999999999999 4455677888889999999999999999999999999999


Q ss_pred             HHHHHhhhc
Q 043946          162 ADIKNRMAS  170 (198)
Q Consensus       162 ~~~~~~~~~  170 (198)
                      +.+.++...
T Consensus       178 ~~~~~~~~~  186 (213)
T 3cph_A          178 KLIQEKIDS  186 (213)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhh
Confidence            998876544

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=3.6e-34  Score=201.96  Aligned_cols=167  Identities=34%  Similarity=0.594  Sum_probs=148.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~   86 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLL   86 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEE
Confidence            4689999999999999999999998887777777766555 667788888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l  166 (181)
T 2fn4_A           87 VFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQL  166 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999998887443 44578999999999998777778888899999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.++..
T Consensus       167 ~~~~~~~~~  175 (181)
T 2fn4_A          167 VRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhhc
Confidence            999987554

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=2.6e-34  Score=200.74  Aligned_cols=165  Identities=28%  Similarity=0.365  Sum_probs=133.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-cccccccCccEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-ITSSYYRGAHGIII   81 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~~i~   81 (198)
                      .+||+++|++|||||||+++|.+........++.+.+.....+..++..+.+.+||+||.+.+.. .+..++..+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            68999999999999999999987666555556666677778888899889999999999988765 67778899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||+++++++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...+++..+++++++||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGA  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHH
Confidence            9999999999999999988877654 478999999999998777888999999999999999999999999999999999


Q ss_pred             HHHHHHh
Q 043946          161 TADIKNR  167 (198)
Q Consensus       161 ~~~~~~~  167 (198)
                      .+.+..+
T Consensus       162 ~~~i~~~  168 (169)
T 3q85_A          162 VRQIRLR  168 (169)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9988764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=8.5e-35  Score=211.38  Aligned_cols=170  Identities=44%  Similarity=0.817  Sum_probs=149.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe----------EEEEEEEeCCCccccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK----------TVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~g~~~~~~~~~   70 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++.          .+.+.+||+||++.+...+.
T Consensus        23 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~  102 (217)
T 2f7s_A           23 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT  102 (217)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHH
Confidence            46799999999999999999999998887777777777777667766665          68999999999999988999


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      .++..+|++|+|||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++.+++..++++++++||++
T Consensus       103 ~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~  182 (217)
T 2f7s_A          103 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT  182 (217)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTT
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCC
Confidence            999999999999999999999999999877755443 5789999999999987777788899999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhc
Q 043946          150 SLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +.|++++|++|.+.+.++...
T Consensus       183 g~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          183 GQNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             TBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhhc
Confidence            999999999999999876554

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=7.9e-34  Score=199.74  Aligned_cols=164  Identities=41%  Similarity=0.728  Sum_probs=143.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+|+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++++
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   85 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLL   85 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEE
Confidence            46899999999999999999999988877888888888888888899988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-HhCCcEEEEeccCCCCHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFAD-EIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~~i~~~  156 (198)
                      |+|++++.++..+..|+..+.....    .+.|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++++
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  164 (177)
T 1wms_A           86 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAA  164 (177)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHH
Confidence            9999999999999999988876654    578999999999997 45567888888887 55689999999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          157 FMAMTADIKN  166 (198)
Q Consensus       157 ~~~l~~~~~~  166 (198)
                      |++|.+.+.+
T Consensus       165 ~~~l~~~~~~  174 (177)
T 1wms_A          165 FEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=2.2e-34  Score=206.11  Aligned_cols=166  Identities=28%  Similarity=0.357  Sum_probs=142.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-cccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-ITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~~i   80 (198)
                      +.+||+|+|.+|||||||+++|.+........++.+.+.....+.+++..+.+.+||++|.+.+.. ++..++..+|++|
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~i  101 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFL  101 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEE
Confidence            578999999999999999999975443323445555666667788899889999999999987654 6778889999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      +|||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++
T Consensus       102 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~  181 (195)
T 3cbq_A          102 IVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEG  181 (195)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHH
Confidence            99999999999999999988877643 47899999999999877778888999999999999999999999999999999


Q ss_pred             HHHHHHHh
Q 043946          160 MTADIKNR  167 (198)
Q Consensus       160 l~~~~~~~  167 (198)
                      |.+.+.++
T Consensus       182 l~~~i~~~  189 (195)
T 3cbq_A          182 AVRQIRLR  189 (195)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHh
Confidence            99988653

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=2.5e-34  Score=202.49  Aligned_cols=163  Identities=42%  Similarity=0.741  Sum_probs=149.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++++|
T Consensus        14 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v   93 (179)
T 2y8e_A           14 KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVV   93 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            58999999999999999999998888878888888888888888999889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.+
T Consensus        94 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  173 (179)
T 2y8e_A           94 YDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA  173 (179)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999998888776668999999999999877777888888899999999999999999999999999987


Q ss_pred             HHH
Q 043946          163 DIK  165 (198)
Q Consensus       163 ~~~  165 (198)
                      .+.
T Consensus       174 ~~~  176 (179)
T 2y8e_A          174 ALP  176 (179)
T ss_dssp             TCC
T ss_pred             HHh
Confidence            654

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=100.00  E-value=1e-33  Score=201.08  Aligned_cols=168  Identities=36%  Similarity=0.648  Sum_probs=144.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|++|||||||+++|.+..+...+.++.. +.....+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   81 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   81 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEE
Confidence            468999999999999999999998887766666654 4445667788888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.+ .....+++..++..++++++++||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  160 (189)
T 4dsu_A           82 VFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTL  160 (189)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999988877543 5789999999999974 4567888899999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.+.....
T Consensus       161 ~~~~~~~~~~~  171 (189)
T 4dsu_A          161 VREIRKHKEKM  171 (189)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHhhhhc
Confidence            99998766543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=1.2e-34  Score=207.98  Aligned_cols=165  Identities=41%  Similarity=0.740  Sum_probs=138.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||.+.+...+..++..+|++|+
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil  106 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLL  106 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEE
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEE
Confidence            46899999999999999999999988877777888878888888889988999999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC------CCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT------DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |||++++.++..+..|+..+......+.|+++|+||+|+.      ..+.+..++...++...+++++++||++|.|+++
T Consensus       107 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~e  186 (199)
T 2p5s_A          107 LYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVE  186 (199)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHH
Confidence            9999999999999999998887766679999999999996      3456678888899999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+.+
T Consensus       187 l~~~l~~~i~~  197 (199)
T 2p5s_A          187 AVLHLAREVKK  197 (199)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.9e-34  Score=206.63  Aligned_cols=164  Identities=34%  Similarity=0.534  Sum_probs=141.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+|+|.+|||||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   85 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFIL   85 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEE
Confidence            4689999999999999999999988877677777664443 456678888899999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |||++++.++..+..|+..+.....  .+.|+++|+||+|+.+ +.+..++...++..++++++++||++|.|++++|++
T Consensus        86 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  164 (199)
T 2gf0_A           86 VFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQE  164 (199)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Confidence            9999999999988888877766543  3689999999999975 456678888889999999999999999999999999


Q ss_pred             HHHHHHHh
Q 043946          160 MTADIKNR  167 (198)
Q Consensus       160 l~~~~~~~  167 (198)
                      |.+.+.++
T Consensus       165 l~~~~~~~  172 (199)
T 2gf0_A          165 LLTLETRR  172 (199)
T ss_dssp             HHHHCSSS
T ss_pred             HHHHHhhh
Confidence            99877654

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=5.4e-34  Score=202.95  Aligned_cols=165  Identities=44%  Similarity=0.835  Sum_probs=146.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc-ccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-TITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~~i   80 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||.+.+. .++..++..+|++|
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~ii   98 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   98 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEE
Confidence            46899999999999999999999988887788888888888888889988999999999999887 78889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC---CCHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS---LNVEQA  156 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~---~~i~~~  156 (198)
                      +|||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||+++   .|++++
T Consensus        99 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l  178 (189)
T 1z06_A           99 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  178 (189)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHH
Confidence            9999999999999999998887765 457999999999999877777888899999999999999999999   999999


Q ss_pred             HHHHHHHHHH
Q 043946          157 FMAMTADIKN  166 (198)
Q Consensus       157 ~~~l~~~~~~  166 (198)
                      |++|.+.+.+
T Consensus       179 ~~~l~~~i~~  188 (189)
T 1z06_A          179 FMTLAHKLKS  188 (189)
T ss_dssp             HHHHC-----
T ss_pred             HHHHHHHHhh
Confidence            9999887643

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=1.3e-34  Score=203.93  Aligned_cols=166  Identities=33%  Similarity=0.548  Sum_probs=145.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC-eEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-KTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ..+||+|+|++|||||||+++|.+..+...+.++.+.+.....+.+++ ..+.+.+||+||++.+...+..++..+|++|
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i   84 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVL   84 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEE
Confidence            578999999999999999999998887766677777777778888876 5789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC--CCCc-EEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS--ENVN-KLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p-~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +|||++++.++..+..|+..+.....  .+.| +++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  164 (178)
T 2hxs_A           85 LVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCF  164 (178)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHH
Confidence            99999999999999999888876532  2345 89999999998766778888999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 043946          158 MAMTADIKNR  167 (198)
Q Consensus       158 ~~l~~~~~~~  167 (198)
                      ++|.+.+.+.
T Consensus       165 ~~l~~~~~~~  174 (178)
T 2hxs_A          165 QKVAAEILGI  174 (178)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHhh
Confidence            9999988653

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=2e-33  Score=200.84  Aligned_cols=165  Identities=26%  Similarity=0.556  Sum_probs=145.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~  100 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLL  100 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEE
Confidence            4689999999999999999999998887777788776555 466788888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC--CcCCHHHHHHHHHHhCCc-EEEEeccCCCCHHHHH
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK--KVVSYETAKAFADEIGIP-FMETSAKDSLNVEQAF  157 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~--~~~~~~~~~~~~~~~~~~-~~~~S~~~~~~i~~~~  157 (198)
                      |||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.  +.+..+++..++..+++. ++++||++|.|++++|
T Consensus       101 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  179 (194)
T 3reg_A          101 CFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF  179 (194)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHH
Confidence            9999999999987 67888887654 46899999999999753  567789999999999997 9999999999999999


Q ss_pred             HHHHHHHHHhh
Q 043946          158 MAMTADIKNRM  168 (198)
Q Consensus       158 ~~l~~~~~~~~  168 (198)
                      ++|.+.+.++.
T Consensus       180 ~~l~~~i~~~~  190 (194)
T 3reg_A          180 EKSVDCIFSNK  190 (194)
T ss_dssp             HHHHHHHHCSC
T ss_pred             HHHHHHHHhcC
Confidence            99999987643

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=5.4e-34  Score=202.78  Aligned_cols=163  Identities=26%  Similarity=0.448  Sum_probs=141.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||++|++.+..+ ..++..+|++|+
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~il   97 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLV   97 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEE
Confidence            568999999999999999999999888777778777555 355677888899999999999887764 678999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEec-cCCCCHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSA-KDSLNVEQAF  157 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~-~~~~~i~~~~  157 (198)
                      |||++++.++..+..|+..+.....   .+.|+++|+||+|+.+.+.+..+++.+++..++++++++|| ++|.|++++|
T Consensus        98 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf  177 (187)
T 3c5c_A           98 VYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVF  177 (187)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHH
Confidence            9999999999999999988877642   47899999999999877778889999999999999999999 8999999999


Q ss_pred             HHHHHHHHH
Q 043946          158 MAMTADIKN  166 (198)
Q Consensus       158 ~~l~~~~~~  166 (198)
                      ++|.+.+.+
T Consensus       178 ~~l~~~i~~  186 (187)
T 3c5c_A          178 HEAVREARR  186 (187)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999988753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=2.2e-33  Score=201.58  Aligned_cols=164  Identities=33%  Similarity=0.623  Sum_probs=145.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeE------------------------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKT------------------------------   51 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------   51 (198)
                      +.+||+|+|++|||||||+++|++..+...+.++.+.++....+..++..                              
T Consensus         6 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (208)
T 3clv_A            6 SSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNN   85 (208)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------C
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccccc
Confidence            57999999999999999999999988887888888777777777777655                              


Q ss_pred             -------EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 -------VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 -------~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                             ..+.+||+||++.+...+..++..+|++|+|+|++++.++..+..|+..+.....  .|+++|+||+| ...+
T Consensus        86 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~piilv~NK~D-~~~~  162 (208)
T 3clv_A           86 YNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN--YIIILVANKID-KNKF  162 (208)
T ss_dssp             CCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--CEEEEEEECTT-CC-C
T ss_pred             ccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC--CcEEEEEECCC-cccc
Confidence                   8899999999999999999999999999999999999999999999988877643  89999999999 4555


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      .+..+++.+++...+++++++||++|.|++++|++|.+.+.++.
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          163 QVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            67788999999999999999999999999999999999887654

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=1.8e-33  Score=195.91  Aligned_cols=163  Identities=31%  Similarity=0.427  Sum_probs=123.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.+.... ...++.+.+. ...+..++..+.+.+||++|.+.+...+..++..+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            589999999999999999999876543 2233334333 46677888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            99999999999999988887653 35789999999999988888889999999999999999999999999999999999


Q ss_pred             HHHHHh
Q 043946          162 ADIKNR  167 (198)
Q Consensus       162 ~~~~~~  167 (198)
                      +.+.++
T Consensus       160 ~~~~~~  165 (166)
T 3q72_A          160 RQIRLR  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            988764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.3e-33  Score=200.31  Aligned_cols=165  Identities=48%  Similarity=0.831  Sum_probs=148.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..++..+|++|+|
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v   94 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILV   94 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEE
Confidence            58999999999999999999999888878888888888888888899889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +|++++.++..+..|+..+..... .+.|+++|+||+|+. .+.+..++...++...+++++++||+++.|++++|++|.
T Consensus        95 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  173 (195)
T 1x3s_A           95 YDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELV  173 (195)
T ss_dssp             EETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999888876542 468999999999995 345677888899999999999999999999999999999


Q ss_pred             HHHHHhh
Q 043946          162 ADIKNRM  168 (198)
Q Consensus       162 ~~~~~~~  168 (198)
                      +.+.+..
T Consensus       174 ~~~~~~~  180 (195)
T 1x3s_A          174 EKIIQTP  180 (195)
T ss_dssp             HHHHTSG
T ss_pred             HHHHhhh
Confidence            9987643

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=5.9e-34  Score=204.73  Aligned_cols=166  Identities=27%  Similarity=0.462  Sum_probs=142.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||.+.+...+..++..+|++|+
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  101 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVL  101 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEE
Confidence            468999999999999999999999888877777776555 5566666677899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|++|
T Consensus       102 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  181 (201)
T 3oes_A          102 VYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKV  181 (201)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999999988866533 468999999999998877888899999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.+..
T Consensus       182 ~~~i~~~~  189 (201)
T 3oes_A          182 IQEIARVE  189 (201)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHhhh
Confidence            99998643

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=1.2e-33  Score=199.49  Aligned_cols=167  Identities=41%  Similarity=0.718  Sum_probs=133.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ..++|+|+|++|||||||+++|.+..+...+.++.+.+.....+.++ +....+.+||+||++.+...+..++..+|++|
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   86 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCV   86 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEE
Confidence            57899999999999999999999988877888888777777777776 55578999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCC-CCcCCHHHHHHHHH-HhCCcEEEEeccCCCCHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTD-KKVVSYETAKAFAD-EIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~S~~~~~~i~  154 (198)
                      +|||++++.++..+..|+..+.....    .+.|+++|+||+|+.. .+.+..+++..++. ..+++++++||++|.|++
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  166 (182)
T 1ky3_A           87 LVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVD  166 (182)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHH
T ss_pred             EEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHH
Confidence            99999999999999999988876653    5789999999999954 34466788888887 456899999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 043946          155 QAFMAMTADIKNRM  168 (198)
Q Consensus       155 ~~~~~l~~~~~~~~  168 (198)
                      ++|++|.+.+.++.
T Consensus       167 ~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          167 TAFEEIARSALQQN  180 (182)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999987754

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=100.00  E-value=3.3e-34  Score=208.39  Aligned_cols=171  Identities=28%  Similarity=0.491  Sum_probs=147.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+... +..+.+.+||+||.+.+...+..++..+|++|
T Consensus        10 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (218)
T 4djt_A           10 LTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAI   89 (218)
T ss_dssp             CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEE
Confidence            57999999999999999999999888777777777766665555544 34488999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        90 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  169 (218)
T 4djt_A           90 LFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHL  169 (218)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHH
Confidence            99999999999999999999988877779999999999998776778888888888889999999999999999999999


Q ss_pred             HHHHHHhhhcCc
Q 043946          161 TADIKNRMASQP  172 (198)
Q Consensus       161 ~~~~~~~~~~~~  172 (198)
                      .+.+.+......
T Consensus       170 ~~~~~~~~~~~~  181 (218)
T 4djt_A          170 ARIFTGRPDLIF  181 (218)
T ss_dssp             HHHHHCCTTCCB
T ss_pred             HHHHhccccccc
Confidence            999987665543

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=1.4e-33  Score=196.56  Aligned_cols=163  Identities=40%  Similarity=0.663  Sum_probs=141.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|.+..+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++|
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   82 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEE
Confidence            58999999999999999999998887766667665444 35567888888999999999999988999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +|++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|.
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  162 (168)
T 1u8z_A           83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLM  162 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHH
Confidence            999999999999999988877654 4789999999999987777788899999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       163 ~~i~~  167 (168)
T 1u8z_A          163 REIRA  167 (168)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88764

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=4e-33  Score=197.82  Aligned_cols=160  Identities=21%  Similarity=0.363  Sum_probs=139.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+...+.++. . .....+.+++..+.+.+||++|++.+.     ++..+|++++
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~   91 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-G-RFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVF   91 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-E-EEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-c-eEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEE
Confidence            46899999999999999999999988877776663 2 334778889988999999999988765     7788999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCC--CCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLT--DKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~--~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~~~  157 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.  ..+.+..+++..++..++ +.++++||++|.|++++|
T Consensus        92 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf  171 (184)
T 3ihw_A           92 VFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVF  171 (184)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999998877643 468999999999994  456678889999999997 899999999999999999


Q ss_pred             HHHHHHHHHhh
Q 043946          158 MAMTADIKNRM  168 (198)
Q Consensus       158 ~~l~~~~~~~~  168 (198)
                      ++|.+.+.+++
T Consensus       172 ~~l~~~i~~~~  182 (184)
T 3ihw_A          172 QDVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=2.7e-33  Score=198.45  Aligned_cols=168  Identities=39%  Similarity=0.640  Sum_probs=147.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus        17 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   95 (187)
T 2a9k_A           17 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   95 (187)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEE
Confidence            358999999999999999999998887777777665444 4556788888899999999999998899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||+++.|++++|++|
T Consensus        96 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  175 (187)
T 2a9k_A           96 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDL  175 (187)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHH
Confidence            9999999999999999888877654 478999999999998777778889999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      .+.+.+++.+
T Consensus       176 ~~~i~~~~~~  185 (187)
T 2a9k_A          176 MREIRARKME  185 (187)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHhhcc
Confidence            9999876544

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=1.4e-33  Score=204.76  Aligned_cols=166  Identities=28%  Similarity=0.535  Sum_probs=144.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.++ ...+.+++..+.+.+||++|++.+..++..++..+|++|+
T Consensus        26 ~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~  104 (214)
T 3q3j_B           26 ARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLL  104 (214)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEE
Confidence            468999999999999999999999888888888877665 3556677778999999999999999999999999999999


Q ss_pred             EEECCChhhHHH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNN-VKQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++.. +..|+..+.... .+.|+++|+||+|+.+.            +.+..+++..++..+++ +++++||
T Consensus       105 v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA  183 (214)
T 3q3j_B          105 CFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA  183 (214)
T ss_dssp             EEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEecc
Confidence            999999999998 688999888775 47999999999999753            56788999999999999 9999999


Q ss_pred             cCCCC-HHHHHHHHHHHHHHhhh
Q 043946          148 KDSLN-VEQAFMAMTADIKNRMA  169 (198)
Q Consensus       148 ~~~~~-i~~~~~~l~~~~~~~~~  169 (198)
                      ++|.| ++++|++|.+.+.++..
T Consensus       184 ~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          184 FTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             TTCHHHHHHHHHHHHHHHHC---
T ss_pred             CCCcccHHHHHHHHHHHHhccCc
Confidence            99998 99999999999876443

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=1.6e-33  Score=196.20  Aligned_cols=163  Identities=36%  Similarity=0.652  Sum_probs=142.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+.... ..+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999998887777777765443 556677778999999999999998899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++..+ +++++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHH
Confidence            999999999999999988876653 357899999999999877777888888998887 789999999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |.+.+.
T Consensus       161 l~~~i~  166 (167)
T 1c1y_A          161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            988763

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=2.3e-33  Score=195.17  Aligned_cols=163  Identities=36%  Similarity=0.607  Sum_probs=143.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.++.+...+.++.+.. ....+..++....+.+||+||++.+...+..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEE
Confidence            5899999999999999999999888777666666533 356777888888999999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +|++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++|.
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  161 (167)
T 1kao_A           82 YSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV  161 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHH
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHH
Confidence            999999999999999888766543 5799999999999987777788888899999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       162 ~~~~~  166 (167)
T 1kao_A          162 RQMNY  166 (167)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            88753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=4.2e-34  Score=206.05  Aligned_cols=168  Identities=27%  Similarity=0.497  Sum_probs=112.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCCCCcccceeeeEEEEEEECCe--EEEEEEEeCCCcccccccccccccCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTVEQDGK--TVKLQIWDTAGQERFRTITSSYYRGAH   77 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~d   77 (198)
                      ..++|+|+|.+|||||||+++|.+.  .+...+.++.+.+.....+.+++.  .+.+.+||+||++.+...+..++..+|
T Consensus        19 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   98 (208)
T 2yc2_C           19 LRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVY   98 (208)
T ss_dssp             EEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCc
Confidence            4589999999999999999999987  777677777776777778888876  789999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCC-CCcCCHHHHHHHHHHhCCcEEEEeccC-CCC
Q 043946           78 GIIIVYDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTD-KKVVSYETAKAFADEIGIPFMETSAKD-SLN  152 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~S~~~-~~~  152 (198)
                      ++|+|||++++.++..+..|+..+.....   .+.|+++|+||+|+.+ .+.+..+++..++..++++++++||++ |.|
T Consensus        99 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~g  178 (208)
T 2yc2_C           99 YAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKD  178 (208)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC------
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcC
Confidence            99999999999999999999999988765   5799999999999987 667788899999999999999999999 999


Q ss_pred             HHHHHHHHHHHHHHhhh
Q 043946          153 VEQAFMAMTADIKNRMA  169 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~~  169 (198)
                      ++++|++|.+.+.++..
T Consensus       179 i~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          179 ADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             -CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999998876544

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=7.2e-33  Score=200.24  Aligned_cols=166  Identities=28%  Similarity=0.397  Sum_probs=137.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC--CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-ccccccccccCccE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS--YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-FRTITSSYYRGAHG   78 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d~   78 (198)
                      +.+||+|+|.+|||||||+++|.+..  +... .++.+.+.....+.+++..+.+.+||++|.+. +..+...+++.+|+
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~  114 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDA  114 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCE
Confidence            46899999999999999999998633  2333 33455566667788899889999999999776 44566778899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +|+|||++++.+|..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus       115 ~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf  194 (211)
T 2g3y_A          115 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELF  194 (211)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            999999999999999999988776542 3478999999999998766777888888888899999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 043946          158 MAMTADIKNRM  168 (198)
Q Consensus       158 ~~l~~~~~~~~  168 (198)
                      ++|.+.+..+.
T Consensus       195 ~~l~~~i~~~~  205 (211)
T 2g3y_A          195 EGIVRQVRLRR  205 (211)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhc
Confidence            99999886543

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=7.1e-33  Score=195.19  Aligned_cols=162  Identities=24%  Similarity=0.363  Sum_probs=136.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+.. +.++.+.. ....+.+++..+.+.+||++|++.     ..+++.+|++|+
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~il   78 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQ-YKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIF   78 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSE-EEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCccee-EEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEE
Confidence            36899999999999999999999888765 56666533 356777888889999999999875     457788999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCC--CCCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLT--DKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~  155 (198)
                      |||++++.++..+..|+..+.....   .+.|+++|+||+|+.  ..+.+..+++..++... +++++++||++|.|+++
T Consensus        79 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  158 (178)
T 2iwr_A           79 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDR  158 (178)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHH
Confidence            9999999999999998766655533   578999999999994  45567788888888876 68999999999999999


Q ss_pred             HHHHHHHHHHHhhhc
Q 043946          156 AFMAMTADIKNRMAS  170 (198)
Q Consensus       156 ~~~~l~~~~~~~~~~  170 (198)
                      +|++|.+.+.+....
T Consensus       159 lf~~l~~~~~~~~~~  173 (178)
T 2iwr_A          159 VFQEVAQKVVTLRKQ  173 (178)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999998876543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=9.2e-33  Score=198.32  Aligned_cols=166  Identities=32%  Similarity=0.507  Sum_probs=137.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||.+.+..++..++.++|++|+
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   97 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLL   97 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEE
Confidence            478999999999999999999998877767777765444 4567778888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+.            +.+..++...++..+++ +++++||
T Consensus        98 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  176 (201)
T 2q3h_A           98 CFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSA  176 (201)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEec
Confidence            99999999999987 69888877654 7999999999999752            45677888899999887 8999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHhhh
Q 043946          148 KDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      ++|.|++++|++|.+.+.+...
T Consensus       177 ~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          177 LTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHhcccc
Confidence            9999999999999999876543

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.3e-32  Score=196.57  Aligned_cols=162  Identities=33%  Similarity=0.601  Sum_probs=142.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        17 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   95 (194)
T 2atx_A           17 LMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLI   95 (194)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEE
Confidence            468999999999999999999999888777777776554 4566777778899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+.            +.+..++...++..+++ +++++||
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  174 (194)
T 2atx_A           96 CFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSA  174 (194)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeC
Confidence            99999999999887 78888877644 7899999999999753            35678888999999998 9999999


Q ss_pred             cCCCCHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~  165 (198)
                      ++|.|++++|++|.+.+.
T Consensus       175 ~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          175 LTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             TTCTTHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHh
Confidence            999999999999998875

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=100.00  E-value=4.6e-33  Score=197.39  Aligned_cols=163  Identities=31%  Similarity=0.590  Sum_probs=141.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|++|||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   84 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI   84 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEE
Confidence            5799999999999999999999998887777777765553 456777888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhC-CcEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIG-IPFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~S~  147 (198)
                      |||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..+++.++++.++ ++++++||
T Consensus        85 v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa  163 (184)
T 1m7b_A           85 CFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  163 (184)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeee
Confidence            9999999999988 67888887764 46899999999999742            4567888899998888 69999999


Q ss_pred             c-CCCCHHHHHHHHHHHHHH
Q 043946          148 K-DSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~-~~~~i~~~~~~l~~~~~~  166 (198)
                      + ++.|++++|++|.+.+.+
T Consensus       164 ~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          164 LQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TTBHHHHHHHHHHHHHHHHT
T ss_pred             cCCCcCHHHHHHHHHHHHhc
Confidence            8 689999999999988764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=6.1e-33  Score=198.62  Aligned_cols=165  Identities=33%  Similarity=0.521  Sum_probs=145.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||.+. ...+..++..+|++++
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iil  104 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVL  104 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEE
Confidence            468999999999999999999999888777777766544 45567788889999999999887 6778889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC-CHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL-NVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~-~i~~~~~~  159 (198)
                      |||+++++++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|. |++++|++
T Consensus       105 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~  184 (196)
T 2atv_A          105 VYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYE  184 (196)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHH
Confidence            9999999999999999988877543 578999999999998777788889999999999999999999999 99999999


Q ss_pred             HHHHHHHhh
Q 043946          160 MTADIKNRM  168 (198)
Q Consensus       160 l~~~~~~~~  168 (198)
                      |.+.+.++.
T Consensus       185 l~~~i~~~~  193 (196)
T 2atv_A          185 LCREVRRRR  193 (196)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhhc
Confidence            999987654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=8.8e-36  Score=213.94  Aligned_cols=166  Identities=86%  Similarity=1.325  Sum_probs=140.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  110 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGII  110 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEE
Confidence            35799999999999999999999998888777888888888889999998899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++|
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l  190 (199)
T 3l0i_B          111 VVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTM  190 (199)
T ss_dssp             ECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999877766689999999999998776666677788888999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       191 ~~~l~~  196 (199)
T 3l0i_B          191 AAEIKK  196 (199)
T ss_dssp             TTTTTT
T ss_pred             HHHHHH
Confidence            877654

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=100.00  E-value=6.1e-32  Score=192.34  Aligned_cols=165  Identities=36%  Similarity=0.642  Sum_probs=133.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|.+..+...+.++.+.. ....+..++..+.+.+||+||.+.+...+..++..+|++++|
T Consensus        21 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   99 (190)
T 3con_A           21 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   99 (190)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCC-----------CTTCSEEEEE
T ss_pred             eeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceE-EEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEE
Confidence            5899999999999999999999887776666665433 345677888888999999999999989999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.. +....+++.++++.++++++++||++|.|++++|++|.
T Consensus       100 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  178 (190)
T 3con_A          100 FAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLV  178 (190)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             EECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999999988876654 4689999999999976 45678888999999999999999999999999999999


Q ss_pred             HHHHHhhh
Q 043946          162 ADIKNRMA  169 (198)
Q Consensus       162 ~~~~~~~~  169 (198)
                      +.+.+.+.
T Consensus       179 ~~~~~~~~  186 (190)
T 3con_A          179 REIRQYRM  186 (190)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHHH
Confidence            99876543

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=100.00  E-value=9.5e-33  Score=199.10  Aligned_cols=163  Identities=31%  Similarity=0.589  Sum_probs=141.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+|+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+||+||++.+..++..++..+|++|+
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~il  105 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI  105 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEE
Confidence            568999999999999999999999888777777776555 3556677778999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhC-CcEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIG-IPFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~S~  147 (198)
                      |||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..+++..+++.++ +.++++||
T Consensus       106 v~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA  184 (205)
T 1gwn_A          106 CFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  184 (205)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeee
Confidence            9999999999988 68988887764 46899999999999742            4567888889998887 69999999


Q ss_pred             c-CCCCHHHHHHHHHHHHHH
Q 043946          148 K-DSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~-~~~~i~~~~~~l~~~~~~  166 (198)
                      + ++.|++++|++|.+.+.+
T Consensus       185 k~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          185 LQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             TTCHHHHHHHHHHHHHHHHH
T ss_pred             ccCCcCHHHHHHHHHHHHhh
Confidence            9 689999999999998764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=100.00  E-value=3.6e-32  Score=195.44  Aligned_cols=163  Identities=32%  Similarity=0.600  Sum_probs=142.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.++. ..+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~  102 (201)
T 2gco_A           24 IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILM  102 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEE
Confidence            4689999999999999999999998887777777766554 446778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..++...++...+. +++++||
T Consensus       103 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  181 (201)
T 2gco_A          103 CFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSA  181 (201)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeC
Confidence            9999999999988 67888777654 37899999999999764            45677888889999888 8999999


Q ss_pred             cCCCCHHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++|.|++++|++|.+.+.+
T Consensus       182 ~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          182 KTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             TTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHhc
Confidence            9999999999999987753

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=100.00  E-value=1.5e-32  Score=194.61  Aligned_cols=163  Identities=31%  Similarity=0.577  Sum_probs=141.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            368999999999999999999998888777777765444 4566788888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+.            +.+..++...++...++ +++++||
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  161 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecC
Confidence            99999999999887 68888877654 7899999999998653            45677888889999987 9999999


Q ss_pred             cCCCCHHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++|.|++++|++|.+.+.+
T Consensus       162 ~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          162 LTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             TTCTTHHHHHHHHHHHHSC
T ss_pred             CCccCHHHHHHHHHHHHhc
Confidence            9999999999999988864

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=6e-33  Score=194.09  Aligned_cols=163  Identities=33%  Similarity=0.517  Sum_probs=140.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||.+.+...+..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            4689999999999999999999988877666676654443 455677777899999999999988888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |+|++++.++..+..|+..+.....  .+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHH
Confidence            9999999999988888887776543  46899999999999877777788888899999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |.+.+.
T Consensus       161 l~~~~~  166 (172)
T 2erx_A          161 LLNLEK  166 (172)
T ss_dssp             HHHTCC
T ss_pred             HHHHHh
Confidence            987654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=100.00  E-value=8.4e-32  Score=186.98  Aligned_cols=162  Identities=35%  Similarity=0.626  Sum_probs=141.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|.+..+...+.++.+.. ....+..++..+.+.+||+||.+.+...+..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceE-EEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            4799999999999999999999887776666665533 346667788888999999999998888888999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +|++++.++..+..|+..+..... .+.|+++|+||+|+.. +....++..++++.++++++++|+++|.|++++|++|.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999999999988877654 3689999999999976 45667888899999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T 2ce2_X          161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=100.00  E-value=2.6e-32  Score=198.02  Aligned_cols=164  Identities=32%  Similarity=0.623  Sum_probs=123.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++..... ...+.+++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~  111 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLL  111 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEE
Confidence            358999999999999999999998887766667665333 4566788888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+.... .+.|+++|+||+|+....            .+..++...+++.+++ +++++||
T Consensus       112 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  190 (214)
T 2j1l_A          112 CFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSA  190 (214)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBT
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecC
Confidence            99999999999886 6888887664 468999999999997642            5677888889999997 9999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHh
Q 043946          148 KDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ++|.|++++|++|.+.+.+.
T Consensus       191 ~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          191 RLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             TTTBSHHHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999998764

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.6e-32  Score=195.25  Aligned_cols=164  Identities=32%  Similarity=0.597  Sum_probs=136.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.... ..+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~  102 (207)
T 2fv8_A           24 IRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILM  102 (207)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEE
T ss_pred             cCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEE
Confidence            3589999999999999999999998887777677665554 346778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNV-KQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.            +.+..++...++...++ +++++||
T Consensus       103 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  181 (207)
T 2fv8_A          103 CFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSA  181 (207)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeC
Confidence            9999999999988 67888887654 46899999999999754            34677788888888888 8999999


Q ss_pred             cCCCCHHHHHHHHHHHHHHh
Q 043946          148 KDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ++|.|++++|++|.+.+.++
T Consensus       182 ~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          182 KTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             TTCTTHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999988753

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=100.00  E-value=1.2e-31  Score=191.44  Aligned_cols=166  Identities=29%  Similarity=0.408  Sum_probs=135.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-ccccccccccCccE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-FRTITSSYYRGAHG   78 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d~   78 (198)
                      +.+||+++|.+|||||||+++|.+.  .+... .++.+.+.....+.+++..+.+.+||++|.+. ...++..+++.+|+
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~   83 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-XEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDA   83 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCcc-ccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCE
Confidence            5789999999999999999999853  33333 33455566667788899888999999999766 44566778888999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHH
Q 043946           79 IIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        79 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +++|||++++.++..+..|+..+.... ..+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|
T Consensus        84 ~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf  163 (192)
T 2cjw_A           84 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELF  163 (192)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHH
Confidence            999999999999999999988777653 3478999999999997666677788888888889999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 043946          158 MAMTADIKNRM  168 (198)
Q Consensus       158 ~~l~~~~~~~~  168 (198)
                      ++|.+.+..+.
T Consensus       164 ~~l~~~~~~~~  174 (192)
T 2cjw_A          164 EGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhhc
Confidence            99999886543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=100.00  E-value=5.6e-31  Score=188.92  Aligned_cols=171  Identities=50%  Similarity=0.834  Sum_probs=149.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.++|+++|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||++|.+.+...+..++..+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            46899999999999999999999998887777788777777788889998899999999999998888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|+.+..++..+..|+..+......+.|+++++||+|+.+.+.+..+++..++...++.++++|++++.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l  162 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  162 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999888888887766555578999999999998766777888888999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.+.....
T Consensus       163 ~~~~~~~~~~~  173 (199)
T 2f9l_A          163 LTEIYRIVSQK  173 (199)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHhhc
Confidence            99998765443

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=100.00  E-value=9.6e-33  Score=197.30  Aligned_cols=165  Identities=24%  Similarity=0.334  Sum_probs=132.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC-----------cccceeeeEEEEE-EECCeEEEEEEEeCCCcccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY-----------ISTIGVDFKIRTV-EQDGKTVKLQIWDTAGQERFRTIT   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~~~~~~   69 (198)
                      +.+||+|+|.+|||||||++.+.+. +...+           .++.+.++....+ ..++..+.+.+||+||++.+...+
T Consensus        13 ~~~ki~vvG~~~~GKssL~~~l~~~-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   91 (198)
T 3t1o_A           13 INFKIVYYGPGLSGKTTNLKWIYSK-VPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASR   91 (198)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHT-SCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHH
T ss_pred             cccEEEEECCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHHHH
Confidence            5789999999999999999766543 33332           2333333333333 456677899999999999999999


Q ss_pred             cccccCccEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cE
Q 043946           70 SSYYRGAHGIIIVYDVT------DQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PF  142 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~  142 (198)
                      ..+++.+|++|+|||++      +..++..+..|+..+.. ...+.|+++|+||+|+.+.  +..+++.+++...++ ++
T Consensus        92 ~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~  168 (198)
T 3t1o_A           92 KLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRDLPDA--LPVEMVRAVVDPEGKFPV  168 (198)
T ss_dssp             HHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTTSTTC--CCHHHHHHHHCTTCCSCE
T ss_pred             HHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchhcccc--cCHHHHHHHHHhcCCceE
Confidence            99999999999999999      45667777777766632 3357999999999999654  678899999999999 99


Q ss_pred             EEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          143 METSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       143 ~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +++||++|.|++++|++|.+.+.++..+
T Consensus       169 ~~~Sa~~~~gv~~l~~~l~~~i~~~~~~  196 (198)
T 3t1o_A          169 LEAVATEGKGVFETLKEVSRLVLARVAG  196 (198)
T ss_dssp             EECBGGGTBTHHHHHHHHHHHHHHHHC-
T ss_pred             EEEecCCCcCHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999886654

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=100.00  E-value=1.4e-32  Score=200.25  Aligned_cols=165  Identities=31%  Similarity=0.607  Sum_probs=145.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+|+|.+|||||||+++|+.+.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        14 ~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   93 (221)
T 3gj0_A           14 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   93 (221)
T ss_dssp             CEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEE
Confidence            56899999999999999999987766666777888888888888889988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+..... +.|+++|+||+|+.+...  ..+...++...+++++++||++|.|++++|++|.
T Consensus        94 v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  170 (221)
T 3gj0_A           94 MFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKV--KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLA  170 (221)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHST-TCCEEEEEECTTSSSCSS--CGGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCccccccc--cHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999999999999887753 689999999999975442  2355567788899999999999999999999999


Q ss_pred             HHHHHhhh
Q 043946          162 ADIKNRMA  169 (198)
Q Consensus       162 ~~~~~~~~  169 (198)
                      +.+.....
T Consensus       171 ~~l~~~~~  178 (221)
T 3gj0_A          171 RKLIGDPN  178 (221)
T ss_dssp             HHHHTCTT
T ss_pred             HHHHhCcc
Confidence            99876544

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=100.00  E-value=9.3e-33  Score=195.08  Aligned_cols=162  Identities=33%  Similarity=0.630  Sum_probs=125.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|....+...+.++.+..+. ..+..++..+.+.+||+||++.+...+..++..+|++++
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   85 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFIL   85 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEE
Confidence            4689999999999999999999988777666666553332 234455666788999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCc----------CCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKV----------VSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+.+.          +..++..+++..+++ +++++||++
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  164 (182)
T 3bwd_D           86 AFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKS  164 (182)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCC
Confidence            99999999999987 68888877654 789999999999865543          367788889988896 999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIK  165 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~  165 (198)
                      |.|++++|++|.+.+.
T Consensus       165 ~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          165 QENVKGVFDAAIRVVL  180 (182)
T ss_dssp             CTTHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999998764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=100.00  E-value=8.6e-32  Score=193.91  Aligned_cols=161  Identities=32%  Similarity=0.583  Sum_probs=137.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|....+...+.++.+ +.....+..++..+.+.+||+||.+.+...+..++..+|++|+
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~  107 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  107 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            368999999999999999999998888777777665 3444666778888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+.... .+.|+++|+||+|+.+..            .+..++...+++..++ +++++||
T Consensus       108 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA  186 (204)
T 4gzl_A          108 CFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  186 (204)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeC
Confidence            99999999999987 7888887765 578999999999987543            2677888889999886 5999999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADI  164 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~  164 (198)
                      ++|.|++++|++|.+.+
T Consensus       187 ~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          187 LTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             TTCTTHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=100.00  E-value=1.1e-31  Score=192.26  Aligned_cols=161  Identities=17%  Similarity=0.308  Sum_probs=128.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +.+||+|+|.+|||||||+++|.+..+.. .+.++.+  .....+...+  +.+.+||+||++.+..++..++..+|++|
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   91 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVG--YNVETFEKGR--VAFTVFDMGGAKKFRGLWETYYDNIDAVI   91 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSS--EEEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccc--eeEEEEEeCC--EEEEEEECCCCHhHHHHHHHHHhcCCEEE
Confidence            57899999999999999999999988876 6667666  3334444444  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC--------CCCcEEEEEeCCCCCCCCcCCHHHHHHHH------HHhCCcEEEEe
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS--------ENVNKLLVGNKCDLTDKKVVSYETAKAFA------DEIGIPFMETS  146 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~--------~~~p~iiv~nK~D~~~~~~~~~~~~~~~~------~~~~~~~~~~S  146 (198)
                      +|||+++++++..+..|+..+.....        .+.|+++|+||+|+.+..  ..+++....      +..+++++++|
T Consensus        92 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~S  169 (199)
T 4bas_A           92 FVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAK--TAAELVEILDLTTLMGDHPFVIFASN  169 (199)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCC--CHHHHHHHHTHHHHHTTSCEEEEECB
T ss_pred             EEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCC--CHHHHHHHhcchhhccCCeeEEEEee
Confidence            99999999999999888877754311        268999999999997653  223322211      33567899999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHhh
Q 043946          147 AKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      |++|.|++++|++|.+.+.++.
T Consensus       170 a~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          170 GLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             TTTTBTHHHHHHHHHHHHHHHC
T ss_pred             CCCccCHHHHHHHHHHHHHHHh
Confidence            9999999999999999988754

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.97  E-value=1.4e-30  Score=185.46  Aligned_cols=159  Identities=20%  Similarity=0.341  Sum_probs=128.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC-CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS-YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ..+||+|+|.+|||||||+++|.+.. +...+.++.+  .....+.+++  ..+.+||+||++.+...+..++..+|++|
T Consensus        20 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (190)
T 2h57_A           20 KEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAII   95 (190)
T ss_dssp             -CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            46899999999999999999999876 4555556554  4445566665  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCC
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLN  152 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~  152 (198)
                      +|+|++++.++..+..|+..+.....   .+.|+++|+||+|+.+.  ...+++.+...     ..+++++++||++|.|
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  173 (190)
T 2h57_A           96 FVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKGEG  173 (190)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCCcC
Confidence            99999999999999888887766533   47899999999999653  34566655543     1346899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 043946          153 VEQAFMAMTADIKN  166 (198)
Q Consensus       153 i~~~~~~l~~~~~~  166 (198)
                      ++++|++|.+.+.+
T Consensus       174 i~~l~~~l~~~i~~  187 (190)
T 2h57_A          174 LQEGVDWLQDQIQT  187 (190)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.97  E-value=2.2e-30  Score=183.67  Aligned_cols=159  Identities=26%  Similarity=0.430  Sum_probs=128.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|++|||||||+++|.+.. ...+.++.+  .....+..++  ..+.+||+||++.+...+..++..+|++++
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIW   91 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSS--EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCc--cceEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            46899999999999999999999877 556666665  3344555665  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++.+...     ..+++++++||++|.|+++
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  169 (186)
T 1ksh_A           92 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLP  169 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHHH
Confidence            99999999999988888776543 22578999999999997643  3344433322     2345799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 043946          156 AFMAMTADIKNR  167 (198)
Q Consensus       156 ~~~~l~~~~~~~  167 (198)
                      +|++|.+.+.++
T Consensus       170 l~~~l~~~i~~~  181 (186)
T 1ksh_A          170 GIDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhc
Confidence            999999988654

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.97  E-value=9.6e-31  Score=182.87  Aligned_cols=158  Identities=23%  Similarity=0.369  Sum_probs=125.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|++|||||||+++|.+..+. .+.++.+  .....+.+++  ..+.+||+||.+.+...+..++..+|++++
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCc--cceEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            4689999999999999999999987764 3445544  3345555665  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+..  ..+++....     ...+++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  158 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM--TSSEMANSLGLPALKDRKWQIFKTSATKGTGLDE  158 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC--CHHHHHHHhCchhccCCceEEEECcCCCCcCHHH
Confidence            999999999988888877665432 2578999999999997543  233333222     22345799999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+.+
T Consensus       159 l~~~l~~~i~~  169 (171)
T 1upt_A          159 AMEWLVETLKS  169 (171)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99999998865

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.97  E-value=1.1e-29  Score=181.19  Aligned_cols=164  Identities=52%  Similarity=0.874  Sum_probs=146.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+++++
T Consensus        27 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i  106 (191)
T 1oix_A           27 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGAL  106 (191)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEE
Confidence            35789999999999999999999998887788888888888888889998888999999999988888888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|..+..++..+..|+..+......+.|+++++||+|+.+......+++..++...++.++++|++++.+++++|++|
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l  186 (191)
T 1oix_A          107 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI  186 (191)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999998888888887766555578999999999998766677888889999999999999999999999999999


Q ss_pred             HHHH
Q 043946          161 TADI  164 (198)
Q Consensus       161 ~~~~  164 (198)
                      .+.+
T Consensus       187 ~~~i  190 (191)
T 1oix_A          187 LTEI  190 (191)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.97  E-value=1.4e-31  Score=185.94  Aligned_cols=156  Identities=22%  Similarity=0.404  Sum_probs=121.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+++|++|||||||+++|.++.+.. +.++.+  .....+...+  +.+.+||+||++.+...+..++..+|++++|+
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEECSS--CEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEECC--EEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999776653 455554  3334444444  78999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      |+++++++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++.....     ..+++++++||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            999999999888888776543 23478999999999996542  3333332211     123469999999999999999


Q ss_pred             HHHHHHHHH
Q 043946          158 MAMTADIKN  166 (198)
Q Consensus       158 ~~l~~~~~~  166 (198)
                      ++|.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999987754

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.97  E-value=1.2e-30  Score=187.05  Aligned_cols=154  Identities=22%  Similarity=0.295  Sum_probs=120.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .++|+++|++|||||||+++|.+..+. .+.++.+.+  ...+.+++  +.+.+||+||++.+...+..+++.+|++++|
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   99 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFL   99 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEEE
Confidence            579999999999999999999987654 455555543  34566677  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----------------hCCcEEE
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----------------IGIPFME  144 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~  144 (198)
                      +|+++++++..+..|+..+... ...+.|+++|+||+|+..  .+..+++.+++..                 .++++++
T Consensus       100 ~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (198)
T 1f6b_A          100 VDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFM  177 (198)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEE
T ss_pred             EECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEE
Confidence            9999999999999988877554 235789999999999965  4567777766542                 2357999


Q ss_pred             EeccCCCCHHHHHHHHHHH
Q 043946          145 TSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~  163 (198)
                      +||++|.|++++|++|.+.
T Consensus       178 ~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          178 CSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             CBTTTTBSHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            9999999999999999754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.97  E-value=1.9e-30  Score=184.54  Aligned_cols=159  Identities=24%  Similarity=0.391  Sum_probs=126.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+...+.++.+.+..  .+...+  +.+.+||+||++.+...+..++..+|++|+
T Consensus        21 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~   96 (188)
T 1zd9_A           21 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVY   96 (188)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE--EEEeCC--EEEEEEECCCCHhHHHHHHHHHccCCEEEE
Confidence            3689999999999999999999988887677777665543  344454  789999999999999899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|+++++++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++.....     ..+++++++||++|.|+++
T Consensus        97 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~  174 (188)
T 1zd9_A           97 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDI  174 (188)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHHH
Confidence            99999999999998888776543 22578999999999996542  2333322211     1235789999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+.+
T Consensus       175 l~~~l~~~~~~  185 (188)
T 1zd9_A          175 TLQWLIQHSKS  185 (188)
T ss_dssp             HHHHHHHTCC-
T ss_pred             HHHHHHHHHHh
Confidence            99999887654

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.97  E-value=4.2e-30  Score=183.14  Aligned_cols=154  Identities=21%  Similarity=0.280  Sum_probs=126.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.+..+. .+.++.+.  ....+..++  +.+.+||+||++.+...+..+++.+|++++|
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   97 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFL   97 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCC--CeEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEE
Confidence            579999999999999999999987764 44555543  345666777  7899999999999998999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH------------hCCcEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE------------IGIPFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~S~~~  149 (198)
                      +|+++++++..+..|+..+... ...+.|+++|+||+|+.+  .+..+++.+.+..            .+++++++||++
T Consensus        98 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  175 (190)
T 1m2o_B           98 VDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVM  175 (190)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTT
T ss_pred             EECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCc
Confidence            9999999999999888777553 225789999999999975  3456666655432            345799999999


Q ss_pred             CCCHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTAD  163 (198)
Q Consensus       150 ~~~i~~~~~~l~~~  163 (198)
                      |.|++++|++|.+.
T Consensus       176 g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          176 RNGYLEAFQWLSQY  189 (190)
T ss_dssp             TBSHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999998753

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=2.4e-30  Score=183.74  Aligned_cols=158  Identities=21%  Similarity=0.342  Sum_probs=123.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|.+|||||||+++|.++.+. .+.++.+..  ...+..++  ..+.+||+||.+.+...+..++..+|++|+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            4689999999999999999999987765 455555433  34455565  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|+++++++..+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+...     ..+++++++||++|.|+++
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  167 (187)
T 1zj6_A           90 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  167 (187)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHH
Confidence            999999999999999887776542 247899999999999653  34455544432     2345899999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+..
T Consensus       168 l~~~l~~~~~~  178 (187)
T 1zj6_A          168 GLEWMMSRLKI  178 (187)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHH
Confidence            99999987753

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.97  E-value=5.4e-30  Score=181.07  Aligned_cols=160  Identities=22%  Similarity=0.342  Sum_probs=124.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|++|||||||+++|..+.+ ..+.++.+.  ....+..++  ..+.+||+||.+.+...+..++..+|++++
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~--~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGF--NVETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIF   91 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTC--CEEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCcc--ceEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            578999999999999999999997665 344555553  334555665  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----CCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----GIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+.....     +++++++||++|.|+++
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  169 (183)
T 1moz_A           92 VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITE  169 (183)
T ss_dssp             EEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHH
Confidence            999999999999888887775543 357899999999999653  2344444433222     24699999999999999


Q ss_pred             HHHHHHHHHHHhh
Q 043946          156 AFMAMTADIKNRM  168 (198)
Q Consensus       156 ~~~~l~~~~~~~~  168 (198)
                      +|++|.+.+.+++
T Consensus       170 l~~~l~~~~~~~q  182 (183)
T 1moz_A          170 GLDWLIDVIKEEQ  182 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999887643

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.97  E-value=2.1e-29  Score=193.68  Aligned_cols=163  Identities=31%  Similarity=0.578  Sum_probs=142.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|.+|||||||+++|....+...+.++.+... ...+..++..+.+.+||+||.+.+...+..++..+|++++
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  232 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  232 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEE
Confidence            458999999999999999999998888777777765444 4566788888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+.            +.+..++...++...++ +++++||
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  311 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  311 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhCC-CCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecC
Confidence            99999999999887 68888877654 7899999999998653            45678888999999997 9999999


Q ss_pred             cCCCCHHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++|.|++++|++|.+.+..
T Consensus       312 ~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          312 LTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TTCTTHHHHHHHHHHHHHC
T ss_pred             CCCcCHHHHHHHHHHHHhc
Confidence            9999999999999988764

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.97  E-value=4.8e-30  Score=181.43  Aligned_cols=158  Identities=25%  Similarity=0.372  Sum_probs=123.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|++|||||||+++|.+..+ ..+.++.+  .....+..++  +.+.+||+||++.+...+..++..+|++++
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g--~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~   89 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILIY   89 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCC--eEEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            568999999999999999999997754 23445544  3344555665  789999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++.+...     ..+++++++||++|.|+++
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  167 (181)
T 1fzq_A           90 VIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQD  167 (181)
T ss_dssp             EEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC--CHHHHHHHhCchhccCCceEEEEccCCCCCCHHH
Confidence            99999999999888887766433 23578999999999997543  3333333221     1235799999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+.+
T Consensus       168 l~~~l~~~~~~  178 (181)
T 1fzq_A          168 GMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHHTC--
T ss_pred             HHHHHHHHHHh
Confidence            99999887754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.97  E-value=4e-30  Score=181.72  Aligned_cols=155  Identities=21%  Similarity=0.326  Sum_probs=123.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+..+ ..+.++.+...  ..+.+++  ..+.+||+||.+.+...+..++..+|++|+
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   94 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   94 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            468999999999999999999998776 44555555333  4555566  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...+++.+...     ..+++++++||++|.|+++
T Consensus        95 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  172 (181)
T 2h17_A           95 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  172 (181)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHH
Confidence            999999999999888887765532 357899999999999653  23444444332     2345799999999999999


Q ss_pred             HHHHHHHH
Q 043946          156 AFMAMTAD  163 (198)
Q Consensus       156 ~~~~l~~~  163 (198)
                      +|++|.+.
T Consensus       173 l~~~l~~~  180 (181)
T 2h17_A          173 GLEWMMSR  180 (181)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHhh
Confidence            99999753

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.97  E-value=4.9e-31  Score=188.25  Aligned_cols=157  Identities=20%  Similarity=0.373  Sum_probs=118.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|++|||||||+++|..+.+. .+.++.+  .....+...+  +.+.+||+||.+.+...+..++..+|++|+
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~iil  102 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLIF  102 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            4689999999999999999999987664 3344443  4444555555  789999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|+++++++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++.....     ..+++++++||++|.|+++
T Consensus       103 v~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  180 (192)
T 2b6h_A          103 VVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLYD  180 (192)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHHH
Confidence            99999999999988888776543 22468999999999996542  3333332211     1234689999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          156 AFMAMTADIK  165 (198)
Q Consensus       156 ~~~~l~~~~~  165 (198)
                      +|++|.+.+.
T Consensus       181 l~~~l~~~i~  190 (192)
T 2b6h_A          181 GLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=1.4e-30  Score=185.22  Aligned_cols=159  Identities=19%  Similarity=0.322  Sum_probs=125.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|..+.+.. +.++.+  .....+..++  ..+.+||+||++.+...+..++..+|++|+
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   95 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVG--VNLETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVIY   95 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTT--CCEEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCc--eEEEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEEE
Confidence            46899999999999999999998776643 445544  3344555565  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|+++++++..+..|+..+.... ..+.|+++|+||+|+.+..  ..+++....     ...+++++++||++|.|+++
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (189)
T 2x77_A           96 VVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVE  173 (189)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCCceEEEEccCCCccCHHH
Confidence            999999999988888877665432 2478999999999996543  233333222     12235799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 043946          156 AFMAMTADIKNR  167 (198)
Q Consensus       156 ~~~~l~~~~~~~  167 (198)
                      +|++|.+.+.++
T Consensus       174 l~~~l~~~i~~~  185 (189)
T 2x77_A          174 GMDWLVERLREQ  185 (189)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999988764

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.94  E-value=2.8e-32  Score=196.34  Aligned_cols=161  Identities=32%  Similarity=0.604  Sum_probs=133.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++|+
T Consensus        29 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil  107 (204)
T 3th5_A           29 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLI  107 (204)
Confidence            468999999999999999999998877666666654333 3445566767889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC------------cCCHHHHHHHHHHhCC-cEEEEec
Q 043946           82 VYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK------------VVSYETAKAFADEIGI-PFMETSA  147 (198)
Q Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~S~  147 (198)
                      |||++++.++..+. .|+..+..... +.|+++|+||+|+.+..            .+..++...+++..++ +++++||
T Consensus       108 v~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA  186 (204)
T 3th5_A          108 CFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  186 (204)
Confidence            99999999998886 78777765443 68999999999997542            3455667777888887 8999999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADI  164 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~  164 (198)
                      ++|.|++++|++|.+.+
T Consensus       187 ~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          187 LTQRGLKTVFDEAIRAV  203 (204)
Confidence            99999999999998765

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.97  E-value=1.5e-30  Score=184.55  Aligned_cols=163  Identities=25%  Similarity=0.445  Sum_probs=120.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--CCCCCCcccceeeeEEEEEEE---CCeEEEEEEEeCCCcccccccccccccCcc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--SYLDSYISTIGVDFKIRTVEQ---DGKTVKLQIWDTAGQERFRTITSSYYRGAH   77 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   77 (198)
                      .+||+|+|++|||||||+++|.+.  .+...+.++.+.++....+..   ++..+.+.+||++|.+.+..++..++..++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            589999999999999999999974  454556677666665554443   234578999999999998888889999999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC---HHHHHHHHHHhCCc----EEEEeccC
Q 043946           78 GIIIVYDVTDQ-ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS---YETAKAFADEIGIP----FMETSAKD  149 (198)
Q Consensus        78 ~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~S~~~  149 (198)
                      ++++|||++++ .++..+..|+..+.... .+.|+++|+||+|+.+.+...   .+....++..++++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999997 57888899998886654 368999999999986543221   12334455556676    99999999


Q ss_pred             CC-CHHHHHHHHHHHHHH
Q 043946          150 SL-NVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~-~i~~~~~~l~~~~~~  166 (198)
                      +. +++++++.|.+.+.+
T Consensus       161 ~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          161 ESDALAKLRKTIINESLN  178 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHC
T ss_pred             CchhHHHHHHHHHHHHhc
Confidence            96 999999999888765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.96  E-value=3.9e-29  Score=175.82  Aligned_cols=158  Identities=18%  Similarity=0.144  Sum_probs=121.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..++|+++|.+|||||||+++|.+..+...+.++.+.+.....+..++  ..+.+||+||++.+...+..++..+|++++
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   84 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDIVIL   84 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCEEEE
Confidence            568999999999999999999999887776666666666666677777  567899999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC---------CcEEEEeccCCCC
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG---------IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~S~~~~~~  152 (198)
                      |+|++++....    ++..+......+.|+++|+||+|+...   ..++........+         ++++++||++|.|
T Consensus        85 v~d~~~~~~~~----~~~~l~~~~~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  157 (178)
T 2lkc_A           85 VVAADDGVMPQ----TVEAINHAKAANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEG  157 (178)
T ss_dssp             EEETTCCCCHH----HHHHHHHHGGGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHH
T ss_pred             EEECCCCCcHH----HHHHHHHHHhCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCC
Confidence            99998843211    112222223347899999999999653   2333333332222         4799999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 043946          153 VEQAFMAMTADIKNRM  168 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~  168 (198)
                      ++++|++|.+.+....
T Consensus       158 v~~l~~~l~~~~~~~~  173 (178)
T 2lkc_A          158 LDHLLEMILLVSEMEE  173 (178)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhhhhc
Confidence            9999999998877643

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.96  E-value=8.8e-30  Score=182.23  Aligned_cols=160  Identities=22%  Similarity=0.273  Sum_probs=118.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccc---cccccCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTIT---SSYYRGAH   77 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~---~~~~~~~d   77 (198)
                      +.+||+++|.+|||||||++++.+. +......+...........+. +..+.+.+||++|++.+....   ..++..+|
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~   97 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHK-MSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTG   97 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSC-CCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhc-CCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccccCC
Confidence            5789999999999999999988764 322222222222222232332 455789999999999887665   78999999


Q ss_pred             EEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-------CcCCHHHHHHHHH----HhCCcEEE
Q 043946           78 GIIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK-------KVVSYETAKAFAD----EIGIPFME  144 (198)
Q Consensus        78 ~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~-------~~~~~~~~~~~~~----~~~~~~~~  144 (198)
                      ++|+|||++++  +++..+..|+..+... ..+.|+++|+||+|+.+.       +.+..++...++.    ..++++++
T Consensus        98 ~~i~v~d~~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e  176 (196)
T 3llu_A           98 ALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYL  176 (196)
T ss_dssp             EEEEEEETTSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEE
T ss_pred             EEEEEEECCCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEE
Confidence            99999999997  6666777777666443 347999999999998652       2333445566666    56789999


Q ss_pred             EeccCCCCHHHHHHHHHHHH
Q 043946          145 TSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +||++ .|++++|++|.+.+
T Consensus       177 ~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          177 TSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             ECTTS-THHHHHHHHHHHHT
T ss_pred             EEech-hhHHHHHHHHHHHh
Confidence            99999 99999999998764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.96  E-value=1.2e-28  Score=180.40  Aligned_cols=165  Identities=21%  Similarity=0.180  Sum_probs=117.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc---------ccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF---------RTITSSY   72 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~   72 (198)
                      ..++|+|+|.+|||||||+++|.+..+.....+..+.+.....+...+  ..+.+||+||....         ...+..+
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~  105 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTITAL  105 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHHHh
Confidence            468999999999999999999998765433333333344444445555  68999999998321         1112345


Q ss_pred             ccCccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHH---HHHHHHHHhC--CcEEEE
Q 043946           73 YRGAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYE---TAKAFADEIG--IPFMET  145 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~~~~  145 (198)
                      +..+|++|+|+|++++.++.  ....|+..+... ..+.|+++|+||+|+.+.+.+..+   ....++...+  ++++++
T Consensus       106 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (228)
T 2qu8_A          106 AHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSF  184 (228)
T ss_dssp             HTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEEC
T ss_pred             hccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEE
Confidence            67889999999999987754  223455444332 136899999999999876655544   4556667776  789999


Q ss_pred             eccCCCCHHHHHHHHHHHHHHhhh
Q 043946          146 SAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      ||++|.|++++|++|.+.+.+...
T Consensus       185 SA~~g~gi~~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          185 STLTGVGVEQAKITACELLKNDQA  208 (228)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             ecccCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999999876554

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.96  E-value=7.9e-29  Score=172.66  Aligned_cols=153  Identities=20%  Similarity=0.269  Sum_probs=114.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc------cccccccc--
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR------TITSSYYR--   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~--   74 (198)
                      .++|+++|++|||||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||.+.+.      .+...++.  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            57999999999999999999998765545555555555555666666  689999999988764      23344554  


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      .+|++++|+|+++.+.   ...|+..+..   .+.|+++|+||+|+...+.+.. +...++..++++++++||++|.|++
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~  153 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIE  153 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            7999999999998654   3446655544   2689999999999865433332 3567778889999999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          155 QAFMAMTADI  164 (198)
Q Consensus       155 ~~~~~l~~~~  164 (198)
                      ++|++|.+.+
T Consensus       154 ~l~~~l~~~~  163 (165)
T 2wji_A          154 ELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.96  E-value=1.1e-29  Score=188.76  Aligned_cols=162  Identities=26%  Similarity=0.400  Sum_probs=120.5

Q ss_pred             ceeEEEEEcCC---------CCcHHHHHHHHhc---CCCCCCCcccc-eeeeEEEEE--------------EECCeEEEE
Q 043946            2 YLFKLLLIGDS---------GVGKSCLLLRFAD---DSYLDSYISTI-GVDFKIRTV--------------EQDGKTVKL   54 (198)
Q Consensus         2 ~~~~i~v~G~~---------~~GKStli~~l~~---~~~~~~~~~~~-~~~~~~~~~--------------~~~~~~~~~   54 (198)
                      +.+||+|+|.+         |||||||+++|.+   ..+...+.++. +.++....+              ..++..+.+
T Consensus        18 ~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l   97 (255)
T 3c5h_A           18 GTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKM   97 (255)
T ss_dssp             SCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CE
T ss_pred             ceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEEEE
Confidence            56999999999         9999999999998   45555555543 222221111              134566889


Q ss_pred             EEEe-----------------------CCCccccccccccccc---------------------CccEEEEEEECCCh--
Q 043946           55 QIWD-----------------------TAGQERFRTITSSYYR---------------------GAHGIIIVYDVTDQ--   88 (198)
Q Consensus        55 ~i~D-----------------------~~g~~~~~~~~~~~~~---------------------~~d~~i~v~d~~~~--   88 (198)
                      .+||                       ++|++.+..++..++.                     ++|++|+|||++++  
T Consensus        98 ~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~  177 (255)
T 3c5h_A           98 HIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMN  177 (255)
T ss_dssp             EEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC---
T ss_pred             EEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCch
Confidence            9999                       6677777777777777                     79999999999998  


Q ss_pred             hhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-hCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946           89 ESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus        89 ~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      .++..+..|+..+... ...+.|+++|+||+|+.+.+.+  ++...++.. .+++++++||++|.|++++|++|.+.+.
T Consensus       178 ~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          178 RNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            8999999999888665 3357899999999998654433  566667665 4789999999999999999999988763

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.95  E-value=1.5e-27  Score=172.78  Aligned_cols=159  Identities=18%  Similarity=0.241  Sum_probs=112.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe-EEEEEEEeCCCcccccc-cccccccCccEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK-TVKLQIWDTAGQERFRT-ITSSYYRGAHGI   79 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~-~~~~~~~~~d~~   79 (198)
                      ..+||+++|++|||||||+++|.+..+...+.++ +....  .+.+++. .+.+.+||+||++.+.. ++..++..+|++
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~   82 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAV   82 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEE
Confidence            4689999999999999999999988776665433 22332  3555543 47899999999998887 788899999999


Q ss_pred             EEEEECCChh-hHHHHHH-HHHHHHHh--cCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHH-----------------
Q 043946           80 IIVYDVTDQE-SFNNVKQ-WLNEIDRY--ASENVNKLLVGNKCDLTDKKVVS--YETAKAFAD-----------------  136 (198)
Q Consensus        80 i~v~d~~~~~-s~~~~~~-~~~~~~~~--~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~-----------------  136 (198)
                      |+|||+++.. ++..+.. |...+...  ...+.|+++|+||+|+.......  .+.+.....                 
T Consensus        83 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~  162 (214)
T 2fh5_B           83 VFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSS  162 (214)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC----------
T ss_pred             EEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCc
Confidence            9999999853 4544444 44444332  23468999999999997653211  111111111                 


Q ss_pred             ----------------Hh--CCcEEEEeccCC------CCHHHHHHHHHHH
Q 043946          137 ----------------EI--GIPFMETSAKDS------LNVEQAFMAMTAD  163 (198)
Q Consensus       137 ----------------~~--~~~~~~~S~~~~------~~i~~~~~~l~~~  163 (198)
                                      ..  ++.|+++||++|      .|++++|++|.+.
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          163 TAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             --CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                            01  557999999999      9999999999875

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=1.1e-27  Score=184.00  Aligned_cols=158  Identities=22%  Similarity=0.389  Sum_probs=118.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|....+... .++.+  .....+...+  +.+.+|||||++.+..++..++..+|++|+
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~--~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vil  238 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIF  238 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETT--EEEEEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEEE
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccc--eEEEEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            357999999999999999999998776433 34433  3334455555  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-----hCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADE-----IGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~S~~~~~~i~~  155 (198)
                      |||++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ..+++......     .+++++++||++|.|+++
T Consensus       239 V~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc--CHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            99999999998888776655433 23578999999999997643  33333332221     234699999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|++|.+.+.+
T Consensus       317 l~~~l~~~l~~  327 (329)
T 3o47_A          317 GLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=7.9e-28  Score=183.21  Aligned_cols=159  Identities=22%  Similarity=0.338  Sum_probs=124.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC---CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-----cccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL---DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-----RTITSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~~~~~~   73 (198)
                      ..+||+++|.+|||||||+++|.+....   ..+.+|.+  .....+.+.+ .+.+.+||+||++.+     ...+..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~--~~~~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATID--VEHSHLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCS--EEEEEEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccc--eEEEEEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999876321   12334444  3333444444 489999999999987     67788899


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCC--CCc----CCHHHHHHHHHHhC---CcE
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA--SENVNKLLVGNKCDLTD--KKV----VSYETAKAFADEIG---IPF  142 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~iiv~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~~  142 (198)
                      +.+|++|+|||++++.++..+..|...+....  ..+.|+++|+||+|+.+  .+.    +..+++.+++..++   +++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            99999999999999999998877766554432  34799999999999976  332    44577788888887   789


Q ss_pred             EEEeccCCCCHHHHHHHHHHHH
Q 043946          143 METSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       143 ~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +++||++ .++.++|..+.+.+
T Consensus       159 ~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          159 FPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             EECCTTS-SHHHHHHHHHHHTT
T ss_pred             EEeeecC-ChHHHHHHHHHHHH
Confidence            9999999 89999999887654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.95  E-value=4.5e-28  Score=172.10  Aligned_cols=157  Identities=22%  Similarity=0.307  Sum_probs=115.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC-----------ccccccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG-----------QERFRTITSSY   72 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~~~~   72 (198)
                      +||+++|.+|||||||+++|.+..+...+.++.+...  ..+...    .+.+||+||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~--~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcccee--EEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            6999999999999999999998887766666544333  333333    589999999           55566666666


Q ss_pred             ccC-ccEEEEEEECCChhhHHHH-HHHHHH---------HHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCc
Q 043946           73 YRG-AHGIIIVYDVTDQESFNNV-KQWLNE---------IDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIP  141 (198)
Q Consensus        73 ~~~-~d~~i~v~d~~~~~s~~~~-~~~~~~---------~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~  141 (198)
                      +.. ++++++++++.|..++..+ ..|...         +......+.|+++|+||+|+....   .++...++..++++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~  152 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVP  152 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhh
Confidence            665 6666666666666666655 445431         222223478999999999987543   56677888888864


Q ss_pred             -------EEEEeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          142 -------FMETSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       142 -------~~~~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                             ++++||++|.|++++|++|.+.+.+.+.
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence                   7999999999999999999998876443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.95  E-value=9e-28  Score=170.38  Aligned_cols=157  Identities=20%  Similarity=0.275  Sum_probs=120.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc------cccccccc--
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR------TITSSYYR--   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~--   74 (198)
                      .++|+++|++|||||||+++|.+........++.+.+.....+..++  ..+.+||+||.+.+.      .++..++.  
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   84 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   84 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhcc
Confidence            57999999999999999999998655444555555556666677766  789999999988764      23445553  


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      .+|++++|+|.++   +.....|+..+..   .+.|+++|+||+|+.....+. .+...+++.++++++++||+++.|++
T Consensus        85 ~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~  157 (188)
T 2wjg_A           85 KPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIE  157 (188)
T ss_dssp             CCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHH
Confidence            5999999999876   3444566665544   468999999999986544333 35667788889999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 043946          155 QAFMAMTADIKNRM  168 (198)
Q Consensus       155 ~~~~~l~~~~~~~~  168 (198)
                      ++|++|.+.+.+..
T Consensus       158 ~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          158 ELKKAISIAVKDKK  171 (188)
T ss_dssp             HHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999998886543

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.95  E-value=2.9e-27  Score=175.84  Aligned_cols=155  Identities=19%  Similarity=0.192  Sum_probs=119.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc------ccccc--
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI------TSSYY--   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--   73 (198)
                      ..++|+++|.+|||||||+|+|.+..+.....++.+.+.....+...+  ..+.+||+||...+...      ...++  
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~   81 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLLK   81 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHhh
Confidence            468999999999999999999998665444455555555555555555  78999999998876542      24454  


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|+++.++..   .|...+..   .+.|+++|+||+|+...+.+. .+...+++.++++++++||++|.|+
T Consensus        82 ~~~d~ii~V~D~t~~~~~~---~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~-~~~~~l~~~lg~~vi~~SA~~g~gi  154 (258)
T 3a1s_A           82 GDADLVILVADSVNPEQSL---YLLLEILE---MEKKVILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGEGL  154 (258)
T ss_dssp             SCCSEEEEEEETTSCHHHH---HHHHHHHT---TTCCEEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCTTH
T ss_pred             cCCCEEEEEeCCCchhhHH---HHHHHHHh---cCCCEEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCcCH
Confidence            5899999999999876543   34444443   378999999999986544433 2367788888999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIK  165 (198)
Q Consensus       154 ~~~~~~l~~~~~  165 (198)
                      +++|++|.+.+.
T Consensus       155 ~el~~~i~~~~~  166 (258)
T 3a1s_A          155 EELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999988754

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.95  E-value=1.2e-27  Score=170.76  Aligned_cols=157  Identities=17%  Similarity=0.213  Sum_probs=105.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC----------cccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG----------QERFRTITSS   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~~~~   71 (198)
                      ..++|+|+|.+|||||||+++|.+..+...+.++.+.+.....+..++   .+.+||+||          .+.+...+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   98 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIET   98 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHH
Confidence            468999999999999999999998775555555555455444455544   589999999          5666666667


Q ss_pred             cccCc---cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH--HHHHH-HHHHhCCcEEEE
Q 043946           72 YYRGA---HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY--ETAKA-FADEIGIPFMET  145 (198)
Q Consensus        72 ~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~~~~  145 (198)
                      ++..+   |++++|+|++++.++.... +...+..   .+.|+++|+||+|+...+.+..  +++.+ +....+++++++
T Consensus        99 ~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (195)
T 1svi_A           99 YITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILF  174 (195)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEEC
T ss_pred             HHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEE
Confidence            76666   9999999999876655432 2222222   4689999999999976543321  22222 221235689999


Q ss_pred             eccCCCCHHHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ||++|.|++++|++|.+.+.
T Consensus       175 Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          175 SSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             CTTTCTTHHHHHHHHHHHHT
T ss_pred             EccCCCCHHHHHHHHHHHhc
Confidence            99999999999999988653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.95  E-value=4.6e-27  Score=162.53  Aligned_cols=150  Identities=19%  Similarity=0.228  Sum_probs=105.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc-------ccccccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER-------FRTITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~   75 (198)
                      .||+++|++|||||||+++|.+.... ....++.+.+.....+..++  ..+.+||+||...       +...+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR--GRFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT--EEEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC--ceEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999986642 22333444455556666676  4789999999876       33455667899


Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCHH
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNVE  154 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i~  154 (198)
                      +|++++|+|++++.+... ..+...+..   .+.|+++|+||+|+.+..    +++.+++ ..++ +++++||++|.|++
T Consensus        80 ~~~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~  150 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLE  150 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChH
Confidence            999999999998543221 112222222   368999999999996542    2333444 5677 89999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          155 QAFMAMTADI  164 (198)
Q Consensus       155 ~~~~~l~~~~  164 (198)
                      ++|++|.+.+
T Consensus       151 ~l~~~l~~~l  160 (161)
T 2dyk_A          151 ELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999998753

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.94  E-value=2.2e-27  Score=176.19  Aligned_cols=151  Identities=15%  Similarity=0.140  Sum_probs=117.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc----------cccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT----------ITSSYY   73 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----------~~~~~~   73 (198)
                      .+|+++|.+|||||||+|+|.+........++.+.+.....+..++  ..+.+||+||...+..          +...++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~--~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE--HLIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT--EEEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC--eEEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            4899999999999999999998765555566666667777777777  5899999999876653          345566


Q ss_pred             --cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC
Q 043946           74 --RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL  151 (198)
Q Consensus        74 --~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~  151 (198)
                        ..+|++|+|+|+++.++...+..+   +.   ..+.|+++|+||+|+....... .....+...++++++++||++|.
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~---l~---~~~~pvilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~  152 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQ---LF---ELGKPVVVALNMMDIAEHRGIS-IDTEKLESLLGCSVIPIQAHKNI  152 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHH---HT---TSCSCEEEEEECHHHHHHTTCE-ECHHHHHHHHCSCEEECBGGGTB
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHH---HH---HcCCCEEEEEEChhcCCcCCcH-HHHHHHHHHcCCCEEEEECCCCC
Confidence              899999999999987655443333   22   2378999999999986543221 23455777889999999999999


Q ss_pred             CHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTAD  163 (198)
Q Consensus       152 ~i~~~~~~l~~~  163 (198)
                      |++++|++|.+.
T Consensus       153 gi~el~~~i~~~  164 (256)
T 3iby_A          153 GIPALQQSLLHC  164 (256)
T ss_dssp             SHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhh
Confidence            999999999875

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.94  E-value=2.5e-27  Score=177.18  Aligned_cols=154  Identities=18%  Similarity=0.208  Sum_probs=114.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc------cccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR------TITSSYYR   74 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~   74 (198)
                      ++.++|+++|.+|||||||+|+|.+........++.+.+.  ....+.. ...+.+||+||...+.      .+...++.
T Consensus         1 ~~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~--~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~   77 (272)
T 3b1v_A            1 GSMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVER--KSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLL   77 (272)
T ss_dssp             --CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSC--EEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEE--EEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHh
Confidence            3578999999999999999999998654444445444333  3333443 4679999999988765      33455554


Q ss_pred             --CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           75 --GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        75 --~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                        .+|++++|+|+++.++.   ..|...+..   .+.|+++++||+|+.....+. .....++..++++++++||++|.|
T Consensus        78 ~~~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~g  150 (272)
T 3b1v_A           78 SQRADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTG  150 (272)
T ss_dssp             TTCCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBS
T ss_pred             cCCCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCC
Confidence              69999999999886554   345444444   378999999999986543333 345677888899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          153 VEQAFMAMTADI  164 (198)
Q Consensus       153 i~~~~~~l~~~~  164 (198)
                      ++++|++|.+.+
T Consensus       151 i~el~~~i~~~~  162 (272)
T 3b1v_A          151 VDQVVKKAAHTT  162 (272)
T ss_dssp             HHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHH
Confidence            999999998754

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.94  E-value=2.9e-27  Score=165.87  Aligned_cols=153  Identities=20%  Similarity=0.230  Sum_probs=112.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~   73 (198)
                      .++|+++|.+|||||||+++|.+.... ....++.+.+.....+.+++  ..+.+||+||.+.....        ...++
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEI   81 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC--eEEEEEECCCcccchhHHHHHHHHHHHHHH
Confidence            479999999999999999999976532 22334444555666777777  45899999997643211        11357


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|++++.++. ...|+..+......+.|+++|+||+|+.+...       .++...+.+++++||++|.|+
T Consensus        82 ~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv  153 (172)
T 2gj8_A           82 EQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGV  153 (172)
T ss_dssp             HTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTH
T ss_pred             HhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCH
Confidence            8999999999999887765 34677767666555799999999999854311       011124568999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIK  165 (198)
Q Consensus       154 ~~~~~~l~~~~~  165 (198)
                      +++|++|.+.+.
T Consensus       154 ~~l~~~l~~~~~  165 (172)
T 2gj8_A          154 DVLRNHLKQSMG  165 (172)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhh
Confidence            999999988764

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.94  E-value=5.1e-26  Score=173.23  Aligned_cols=159  Identities=16%  Similarity=0.097  Sum_probs=122.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEEC-CeEEEEEEEeCCCccccc----------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFR----------TITS   70 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~----------~~~~   70 (198)
                      .-.|+++|.+|||||||+|+|++..+.. ...+..+.......+..+ +  .++.+|||||.....          ....
T Consensus        10 ~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~--~~i~lvDTPG~~~~~~~~~l~~~~~~~~~   87 (308)
T 3iev_A           10 VGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNE--AQIIFLDTPGIYEPKKSDVLGHSMVEIAK   87 (308)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTT--EEEEEEECCCCCCCCTTCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCC--CeEEEEECcCCCccccchhHHHHHHHHHH
Confidence            3579999999999999999999877642 222333333343444454 4  789999999985433          4556


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEecc
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAK  148 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~  148 (198)
                      .++..+|++++|+|++++.+......|+..+..   .+.|+++|+||+|+........+.+..+...++  .+++++||+
T Consensus        88 ~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~  164 (308)
T 3iev_A           88 QSLEEADVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISAL  164 (308)
T ss_dssp             HHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTT
T ss_pred             HHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCC
Confidence            778899999999999998777777767776655   368999999999997444445667777777775  789999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~~~  166 (198)
                      +|.|++++|++|.+.+.+
T Consensus       165 ~g~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          165 KGANLDELVKTILKYLPE  182 (308)
T ss_dssp             TTBSHHHHHHHHHHHSCB
T ss_pred             CCCCHHHHHHHHHHhCcc
Confidence            999999999999887753

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.94  E-value=1.1e-27  Score=181.41  Aligned_cols=155  Identities=16%  Similarity=0.212  Sum_probs=113.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC---CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc---cccccccCccE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD---SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT---ITSSYYRGAHG   78 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~d~   78 (198)
                      ||+++|..|||||||++++.+...+.   ...+|.+.+...  +  + ..+++++|||+|++++..   .+..+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v--~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F--S-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E--C-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E--c-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887543322   244555555442  2  2 237899999999999864   46889999999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-------CcCCHHHHHHHHHH----hCCcEEEE
Q 043946           79 IIIVYDVTDQ--ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK-------KVVSYETAKAFADE----IGIPFMET  145 (198)
Q Consensus        79 ~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~~  145 (198)
                      +|+|||++++  +....+..|+..+... ..+.|+++++||+|+...       +.+..++.+++++.    +++.|+++
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~-~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHH-CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhc-CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            9999999997  3333333344444433 357999999999999754       23445555666664    57899999


Q ss_pred             eccCCCCHHHHHHHHHHHHHH
Q 043946          146 SAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       146 S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ||++ .++.++|..|.+.+..
T Consensus       155 SAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          155 SIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             CSSS-SHHHHHHHHHHTTSST
T ss_pred             ccCC-CcHHHHHHHHHHHHHh
Confidence            9998 5899999999876643

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=3e-27  Score=192.42  Aligned_cols=162  Identities=21%  Similarity=0.318  Sum_probs=122.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEE------EEE--CCeEEEEEEEeCCCcccccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRT------VEQ--DGKTVKLQIWDTAGQERFRTITSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~------~~~--~~~~~~~~i~D~~g~~~~~~~~~~~~   73 (198)
                      ..+||+++|.+|||||||+++|.+..+...+.++.+.+.....      +.+  ++..+.+.+||+||++.+......++
T Consensus        40 ~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l  119 (535)
T 3dpu_A           40 QEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFM  119 (535)
T ss_dssp             CEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHc
Confidence            4689999999999999999999998887777777776655432      112  22347899999999999998899999


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++|+|+|+++.+   .+..|...+..... +.|+++|+||+|+...+.+..+++...+...+++++++||++|.|+
T Consensus       120 ~~~d~ii~V~D~s~~~---~~~~~~~~l~~~~~-~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi  195 (535)
T 3dpu_A          120 TRSSVYMLLLDSRTDS---NKHYWLRHIEKYGG-KSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGV  195 (535)
T ss_dssp             HSSEEEEEEECGGGGG---GHHHHHHHHHHHSS-SCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----C
T ss_pred             cCCcEEEEEEeCCCch---hHHHHHHHHHHhCC-CCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCH
Confidence            9999999999998754   45678887877654 6899999999999877777888888888888999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 043946          154 EQAFMAMTADIKNR  167 (198)
Q Consensus       154 ~~~~~~l~~~~~~~  167 (198)
                      +++|++|.+.+.+.
T Consensus       196 ~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          196 ESIAKSLKSAVLHP  209 (535)
T ss_dssp             TTHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999888653

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.94  E-value=2.6e-26  Score=172.06  Aligned_cols=158  Identities=23%  Similarity=0.220  Sum_probs=120.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc------cccccc--
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT------ITSSYY--   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--   73 (198)
                      +.++|+++|++|||||||+|+|.+........++.+.+.....+.+.+  ..+.+||+||...+..      ....++  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            468999999999999999999998766555566666667767777777  5699999999887654      344455  


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|+++...   ...+...+...  ...|+++|+||+|+........ ....+.+.++++++++|+++|.|+
T Consensus        80 ~~~d~vi~v~D~~~~~~---~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi  153 (271)
T 3k53_A           80 GNADVIVDIVDSTCLMR---NLFLTLELFEM--EVKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGV  153 (271)
T ss_dssp             TCCSEEEEEEEGGGHHH---HHHHHHHHHHT--TCCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTH
T ss_pred             cCCcEEEEEecCCcchh---hHHHHHHHHhc--CCCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCH
Confidence            78999999999988543   23333334333  1289999999999854332222 266677888999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 043946          154 EQAFMAMTADIKNR  167 (198)
Q Consensus       154 ~~~~~~l~~~~~~~  167 (198)
                      +++|++|.+.+.+.
T Consensus       154 ~~l~~~i~~~~~~~  167 (271)
T 3k53_A          154 EELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.94  E-value=5.7e-27  Score=175.77  Aligned_cols=154  Identities=17%  Similarity=0.205  Sum_probs=115.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc----------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI----------TSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----------~~~~   72 (198)
                      .++|+++|.+|||||||+|+|.+........++.+.+.....+...+  ..+.+||+||...+...          ...+
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            58999999999999999999998765445556666666666666666  56889999998776521          2223


Q ss_pred             c--cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC
Q 043946           73 Y--RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS  150 (198)
Q Consensus        73 ~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~  150 (198)
                      +  ..+|++|+|+|+++.+....+..+   +...   +.|+++|+||+|+.+.... ......+.+.++++++++||++|
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~~~~~---l~~~---~~p~ivv~NK~Dl~~~~~~-~~~~~~l~~~lg~~~i~~SA~~g  153 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLYLTLQ---LLEL---GIPCIVALNMLDIAEKQNI-RIEIDALSARLGCPVIPLVSTRG  153 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHHHHHH---HHHH---TCCEEEEEECHHHHHHTTE-EECHHHHHHHHTSCEEECCCGGG
T ss_pred             HhhcCCCEEEEEecCCChHHHHHHHHH---HHhc---CCCEEEEEECccchhhhhH-HHHHHHHHHhcCCCEEEEEcCCC
Confidence            2  789999999999986654444333   3333   6899999999998643322 12345677788999999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADIK  165 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~  165 (198)
                      .|++++|++|.+.+.
T Consensus       154 ~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          154 RGIEALKLAIDRYKA  168 (274)
T ss_dssp             HHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999876554

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.94  E-value=3.2e-26  Score=163.02  Aligned_cols=155  Identities=17%  Similarity=0.217  Sum_probs=108.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC----------cccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG----------QERFRTITSS   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~~~~   71 (198)
                      ..+||+|+|.+|||||||+++|.+... ....++.+.+........+.   .+.+||+||          .+.+...+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~   97 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRLVED   97 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHHHHH
Confidence            457999999999999999999998763 23344444444444444443   478999999          4455555556


Q ss_pred             cccCc---cEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHHHHHHHHhC-CcEE
Q 043946           72 YYRGA---HGIIIVYDVTDQES--FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETAKAFADEIG-IPFM  143 (198)
Q Consensus        72 ~~~~~---d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~-~~~~  143 (198)
                      ++..+   |++++|+|+++..+  ...+..|+...      +.|+++|+||+|+.+...  ...+++..++...+ ++++
T Consensus        98 ~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (195)
T 3pqc_A           98 YFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTII  171 (195)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEE
T ss_pred             HHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceE
Confidence            66554   99999999987533  22333333222      689999999999975432  22344555555534 6899


Q ss_pred             EEeccCCCCHHHHHHHHHHHHHH
Q 043946          144 ETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++||++|.|++++|++|.+.+.+
T Consensus       172 ~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          172 PTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             EEecCCCCCHHHHHHHHHHHhhc
Confidence            99999999999999999987753

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.93  E-value=4.8e-26  Score=165.74  Aligned_cols=162  Identities=15%  Similarity=0.132  Sum_probs=105.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCc----------cccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQ----------ERFRTITS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~----------~~~~~~~~   70 (198)
                      ..++|+|+|.+|||||||+++|.+...........+.+......... .....+.+|||||.          +.+.....
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  107 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLS  107 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHH
Confidence            45799999999999999999999876221222222223333333333 22367999999994          23334444


Q ss_pred             ccccC---ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHHH-------h
Q 043946           71 SYYRG---AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETAKAFADE-------I  138 (198)
Q Consensus        71 ~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~~-------~  138 (198)
                      .++..   +|++++|+|+.++.+. ....++..+..   .+.|+++|+||+|+.......  .+.+.+....       .
T Consensus       108 ~~~~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~  183 (223)
T 4dhe_A          108 SYLQTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAG  183 (223)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCS
T ss_pred             HHHhcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCC
Confidence            45444   8889999999875331 12334444433   368999999999986543211  1222333333       3


Q ss_pred             CCcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          139 GIPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       139 ~~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      +.+++++||++|.|++++|++|.+.+...
T Consensus       184 ~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          184 KLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             CEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             CCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence            46899999999999999999999887543

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.93  E-value=3.9e-25  Score=176.64  Aligned_cols=156  Identities=19%  Similarity=0.152  Sum_probs=100.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~   73 (198)
                      .++|+|+|.+|||||||+|+|.+... .....++.+.+.....+..++  ..+.+|||||...+...        ...++
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~  310 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKM  310 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhc
Confidence            47899999999999999999997642 234445555556666777777  67999999998765433        24478


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|++++.++..+..+...+....  +.|+++|+||+|+......   ..+.+......+++++||++|.|+
T Consensus       311 ~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI  385 (476)
T 3gee_A          311 AEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGI  385 (476)
T ss_dssp             SSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSH
T ss_pred             ccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCH
Confidence            99999999999999877654334443333332  6899999999999765432   223343332478999999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIK  165 (198)
Q Consensus       154 ~~~~~~l~~~~~  165 (198)
                      +++|++|.+.+.
T Consensus       386 ~eL~~~i~~~~~  397 (476)
T 3gee_A          386 DTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998876

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.93  E-value=1.5e-25  Score=178.28  Aligned_cols=161  Identities=18%  Similarity=0.181  Sum_probs=114.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc----------ccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE----------RFRTITS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~~   70 (198)
                      ..++|+++|.+|||||||+|+|++.... ....++.+.+.....+..++  ..+.+|||||..          .+..++.
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~e~~~~~~~  251 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ--QEFVIVDTAGMRKKGKVYETTEKYSVLRA  251 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETT--EEEEETTHHHHTCBTTBCCCCSHHHHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECC--eEEEEEECCCcCcCccccchHHHHHHHHH
Confidence            4689999999999999999999986542 23344445555556677777  468999999973          3333222


Q ss_pred             -ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-HHHH----hCCcEEE
Q 043946           71 -SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-FADE----IGIPFME  144 (198)
Q Consensus        71 -~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~  144 (198)
                       .+++.+|++++|+|++++.+.... .|...+..   .+.|+++|+||+|+.+.+....++..+ +...    .++++++
T Consensus       252 ~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  327 (436)
T 2hjg_A          252 LKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILF  327 (436)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEE
Confidence             477889999999999998776554 45555543   368999999999997655443444333 2222    2579999


Q ss_pred             EeccCCCCHHHHHHHHHHHHHHhh
Q 043946          145 TSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      +||++|.|++++|+++.+.+.+..
T Consensus       328 ~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          328 MSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             EecccCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999998887643

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.93  E-value=4.8e-25  Score=175.47  Aligned_cols=179  Identities=20%  Similarity=0.272  Sum_probs=120.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc---------ccccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER---------FRTITSSYY   73 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~   73 (198)
                      .+|+++|.+|||||||+|+|++.+.. ....++.+.+.....+.+.+  ..+.+|||||.+.         +...+..++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC--eEEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            47999999999999999999986532 23445555566667777887  4688999999653         233456688


Q ss_pred             cCccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH-HHHHHHhCC-cEEEEeccC
Q 043946           74 RGAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA-KAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~S~~~  149 (198)
                      +.+|++++|+|+.++.+..  .+..|+   ..   .++|+++|+||+|+...  . ..+. .++. ..++ +++++||++
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l---~~---~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~  149 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFL---RK---STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEH  149 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHH---HH---HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTT
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHH---HH---cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccC
Confidence            9999999999998754432  222332   22   26899999999997432  1 1222 3332 4566 789999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhc-CcCCCCCCCCccccCCCCCCCCCC
Q 043946          150 SLNVEQAFMAMTADIKNRMAS-QPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      |.|+.++|++|.+.+.+.... ...........+.+-++++.||++
T Consensus       150 g~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKST  195 (439)
T 1mky_A          150 NINLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKST  195 (439)
T ss_dssp             TBSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHH
T ss_pred             CCCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHH
Confidence            999999999999988653211 011112345678889999999886

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.92  E-value=3.2e-24  Score=166.51  Aligned_cols=161  Identities=17%  Similarity=0.189  Sum_probs=119.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc---------ccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT---------ITSSY   72 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---------~~~~~   72 (198)
                      ..++|+++|.+|||||||+++|.+........+..+.......+...+  ..+.+|||||......         ....+
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~  243 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAILAL  243 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHHHGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHHHHH
Confidence            357899999999999999999998654222223333334444444454  6799999999754321         12234


Q ss_pred             ccCccEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCC
Q 043946           73 YRGAHGIIIVYDVTDQE--SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDS  150 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~  150 (198)
                      ...+|++++|+|++++.  ++.....|+..+..... +.|+++|+||+|+.....  .++...++...+++++++||++|
T Consensus       244 ~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iSA~~g  320 (357)
T 2e87_A          244 RYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEEN--IKRLEKFVKEKGLNPIKISALKG  320 (357)
T ss_dssp             GGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHH--HHHHHHHHHHTTCCCEECBTTTT
T ss_pred             HhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHH--HHHHHHHHHhcCCCeEEEeCCCC
Confidence            45799999999999876  66777778887776544 689999999999965432  24455666677889999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q 043946          151 LNVEQAFMAMTADIKNR  167 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~~  167 (198)
                      .|++++|++|.+.+...
T Consensus       321 ~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          321 TGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHH
Confidence            99999999999888654

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.92  E-value=4.2e-25  Score=176.55  Aligned_cols=162  Identities=19%  Similarity=0.188  Sum_probs=118.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC-CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC----------ccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS-YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG----------QERFRTITS   70 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~~~   70 (198)
                      ..++|+++|.+|+|||||+++|.+.. ......++.+.+.....+..++  ..+.+|||||          .+.+...+.
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~e~~~~~~~  271 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ--QEFVIVDTAGMRKKGKVYETTEKYSVLRA  271 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETT--EEEEETTGGGTTTBTTBCCCCSHHHHHHH
T ss_pred             ccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECC--ceEEEEECCCCCcCcccchHHHHHHHHHH
Confidence            46899999999999999999999654 2223344444455556667777  4799999999          455554444


Q ss_pred             -ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----CCcEEE
Q 043946           71 -SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----GIPFME  144 (198)
Q Consensus        71 -~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~  144 (198)
                       .+++.+|++++|+|++++.. .....|...+..   .+.|+++|+||+|+.+.+....++..+.+...     ++++++
T Consensus       272 ~~~~~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  347 (456)
T 4dcu_A          272 LKAIDRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILF  347 (456)
T ss_dssp             HHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHHhhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEE
Confidence             37789999999999987543 222344444443   36899999999999876666667777766655     579999


Q ss_pred             EeccCCCCHHHHHHHHHHHHHHhhh
Q 043946          145 TSAKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      +||++|.|++++|++|.+.+.+...
T Consensus       348 ~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          348 MSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             EcCCCCcCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999988866543

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.92  E-value=1.1e-25  Score=163.32  Aligned_cols=142  Identities=20%  Similarity=0.294  Sum_probs=103.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC---CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccC---
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD---SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG---   75 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~---   75 (198)
                      ..++|+++|++|||||||+++|.+..+..   .+.++.+..+         ....+.+||+||++.+...+..++..   
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   81 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTRAK   81 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHHGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhccc
Confidence            46899999999999999999999876543   2333332222         23579999999999988888888877   


Q ss_pred             -ccEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCCCCcCC------HHHHHHHHHHhCCcEE
Q 043946           76 -AHGIIIVYDVT-DQESFNNVKQWLNEIDRY----ASENVNKLLVGNKCDLTDKKVVS------YETAKAFADEIGIPFM  143 (198)
Q Consensus        76 -~d~~i~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~p~iiv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~  143 (198)
                       +|++|+|+|++ +++++..+..|+..+...    ...+.|+++|+||+|+.....+.      .+++..++...++.++
T Consensus        82 ~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  161 (218)
T 1nrj_B           82 FVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLN  161 (218)
T ss_dssp             GEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence             89999999999 888888888887766554    33579999999999997665433      3445666666778899


Q ss_pred             EEeccCCCC
Q 043946          144 ETSAKDSLN  152 (198)
Q Consensus       144 ~~S~~~~~~  152 (198)
                      ++|+++|.+
T Consensus       162 ~~Sa~~~~~  170 (218)
T 1nrj_B          162 EVERKINEE  170 (218)
T ss_dssp             C--------
T ss_pred             ccccccccc
Confidence            999998864

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.91  E-value=6.2e-24  Score=161.05  Aligned_cols=154  Identities=18%  Similarity=0.125  Sum_probs=107.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--------FRTITSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   73 (198)
                      ..+|+++|.+|||||||+|+|++..+.. ...+..+.......+..++  .++.+|||||...        +......++
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l   84 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEAL   84 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHHHHHHHHHH
Confidence            4579999999999999999999876642 2223222232223333444  7899999999765        344556688


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-C-CcEEEEeccCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-G-IPFMETSAKDS  150 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~-~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-~-~~~~~~S~~~~  150 (198)
                      ..+|++++|+|++++.+..  ..|+ ..+.... .+.|+++|+||+|+.....    .+......+ + .+++++||++|
T Consensus        85 ~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~iSA~~g  157 (301)
T 1wf3_A           85 ADVNAVVWVVDLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAKYPE----EAMKAYHELLPEAEPRMLSALDE  157 (301)
T ss_dssp             SSCSEEEEEEETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCSSHH----HHHHHHHHTSTTSEEEECCTTCH
T ss_pred             hcCCEEEEEEECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCCchH----HHHHHHHHhcCcCcEEEEeCCCC
Confidence            9999999999998764432  2333 4444332 3689999999999865432    022233332 2 47899999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADIK  165 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~  165 (198)
                      .|++++|++|.+.+.
T Consensus       158 ~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          158 RQVAELKADLLALMP  172 (301)
T ss_dssp             HHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHhcc
Confidence            999999999987653

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.91  E-value=6e-24  Score=169.96  Aligned_cols=153  Identities=23%  Similarity=0.266  Sum_probs=114.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc-cccc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE-RFRT--------ITSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-~~~~--------~~~~~   72 (198)
                      .++|+++|.+|||||||+|+|.+... .....++++.+.....+.+++  ..+.+|||||.. .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            37999999999999999999997642 234445555666667777777  678999999987 4432        12456


Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLN  152 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~  152 (198)
                      +..+|++|+|+|++++.++.... ++..+     .+.|+++|+||+|+...  ...+++..+.. .+.+++++||++|.|
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~G  391 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEG  391 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCC
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCC
Confidence            78999999999999877665432 22222     26899999999999653  34455544432 346899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 043946          153 VEQAFMAMTADIKN  166 (198)
Q Consensus       153 i~~~~~~l~~~~~~  166 (198)
                      ++++|++|.+.+..
T Consensus       392 i~eL~~~l~~~~~~  405 (482)
T 1xzp_A          392 LEKLEESIYRETQE  405 (482)
T ss_dssp             HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998764

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.91  E-value=1.3e-24  Score=166.95  Aligned_cols=158  Identities=18%  Similarity=0.253  Sum_probs=116.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc----ccccccccc---cCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER----FRTITSSYY---RGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~~~~---~~~   76 (198)
                      .+|+|+|.+|||||||+++|..........+..+.......+.+++. ..+.+||+||...    ...+...++   ..+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~  237 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERT  237 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhc
Confidence            36899999999999999999875432122222223333334555532 4789999999543    222333443   459


Q ss_pred             cEEEEEEECCC---hhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccC
Q 043946           77 HGIIIVYDVTD---QESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKD  149 (198)
Q Consensus        77 d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~  149 (198)
                      |++|+|+|+++   ++++..+..|...+..+..  .+.|+++|+||+|+...    .+..+.+...+.  .+++++||++
T Consensus       238 d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~----~e~~~~l~~~l~~~~~v~~iSA~t  313 (342)
T 1lnz_A          238 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVT  313 (342)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCC
T ss_pred             cEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCC----HHHHHHHHHHhhcCCCEEEEECCC
Confidence            99999999998   7888888999988887642  47899999999998643    244566666666  6899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~  166 (198)
                      +.|+++++++|.+.+.+
T Consensus       314 g~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          314 REGLRELLFEVANQLEN  330 (342)
T ss_dssp             SSTTHHHHHHHHHHHTS
T ss_pred             CcCHHHHHHHHHHHHhh
Confidence            99999999999988754

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.91  E-value=6.7e-25  Score=172.71  Aligned_cols=157  Identities=15%  Similarity=0.150  Sum_probs=115.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-------ccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-------TSSYY   73 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~~~   73 (198)
                      ..++|+|+|..|+|||||+++|++..+. ....++.+.+.....+...+. ..+.+|||||++.+..+       ...++
T Consensus        33 ~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~~~l  111 (423)
T 3qq5_A           33 FRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKARRVF  111 (423)
T ss_dssp             CCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHHHHH
Confidence            4689999999999999999999986652 233444455556666666654 37999999998876544       24478


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++|+|+|+....   ....|+..+...   +.|+++|+||+|+......  +..++++..++++++++||++|.|+
T Consensus       112 ~~aD~vllVvD~~~~~---~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg~gI  183 (423)
T 3qq5_A          112 YRADCGILVTDSAPTP---YEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQKKGF  183 (423)
T ss_dssp             TSCSEEEEECSSSCCH---HHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCTTST
T ss_pred             hcCCEEEEEEeCCChH---HHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCCCCH
Confidence            8999999999994433   235566656554   7899999999999766543  5566666677889999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 043946          154 EQAFMAMTADIKNR  167 (198)
Q Consensus       154 ~~~~~~l~~~~~~~  167 (198)
                      +++|++|.+.+.+.
T Consensus       184 ~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          184 DDIGKTISEILPGD  197 (423)
T ss_dssp             TTHHHHHHHHSCCC
T ss_pred             HHHHHHHHHhhhhh
Confidence            99999999888543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.90  E-value=2.8e-23  Score=169.69  Aligned_cols=159  Identities=23%  Similarity=0.281  Sum_probs=111.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCC--CCC-------------CCcccceeeeEEEEEEE---CCeEEEEEEEeCCCc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDS--YLD-------------SYISTIGVDFKIRTVEQ---DGKTVKLQIWDTAGQ   62 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~   62 (198)
                      ++..+|+|+|+.++|||||+++|+...  ...             +.....+.......+.+   ++..+.+.+|||||+
T Consensus         2 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh   81 (599)
T 3cb4_D            2 KNIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGH   81 (599)
T ss_dssp             TTEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCc
Confidence            356799999999999999999997521  110             00111222222222322   455689999999999


Q ss_pred             ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC--
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI--  140 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~--  140 (198)
                      .++...+..++..+|++|+|+|++++.+......|.....    .+.|+++++||+|+.+.+  ..+...++...+++  
T Consensus        82 ~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~  155 (599)
T 3cb4_D           82 VDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDA  155 (599)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCC
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCc
Confidence            9999889999999999999999998776666666665442    368999999999997643  23344556666676  


Q ss_pred             -cEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          141 -PFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       141 -~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                       .++++||++|.|++++|++|.+.+.
T Consensus       156 ~~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          156 TDAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             TTCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             ceEEEeecccCCCchhHHHHHhhcCC
Confidence             4899999999999999999987764

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.90  E-value=2.4e-23  Score=167.03  Aligned_cols=154  Identities=16%  Similarity=0.172  Sum_probs=110.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-------CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-------YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG   75 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   75 (198)
                      .++|+++|..++|||||+++|.+..       ...+..++.+.+.....+..++  ..+.+||+||++.+.......+..
T Consensus        19 ~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~~~~   96 (482)
T 1wb1_A           19 NINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAADI   96 (482)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHHHhh
Confidence            5899999999999999999998755       2333334444444444555666  789999999999998888889999


Q ss_pred             ccEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHHHHHHHHh----CCcEEEEe
Q 043946           76 AHGIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETAKAFADEI----GIPFMETS  146 (198)
Q Consensus        76 ~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~----~~~~~~~S  146 (198)
                      +|++|+|+|+++   +++...+.    .+..   .+.|+++++||+|+.+...  ...+++.+++...    +++++++|
T Consensus        97 aD~~ilVvda~~g~~~qt~e~l~----~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vS  169 (482)
T 1wb1_A           97 IDLALIVVDAKEGPKTQTGEHML----ILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPIS  169 (482)
T ss_dssp             CCEEEEEEETTTCSCHHHHHHHH----HHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECC
T ss_pred             CCEEEEEEecCCCccHHHHHHHH----HHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEE
Confidence            999999999988   44433322    2322   2678899999999975321  1134455555555    57899999


Q ss_pred             ccCCCCHHHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~  165 (198)
                      |++|.|+++++++|.+.+.
T Consensus       170 A~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          170 AKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             TTTCTTHHHHHHHHHHHHH
T ss_pred             CcCCCCHHHHHHHHHHhhc
Confidence            9999999999999998776

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.90  E-value=1e-24  Score=173.42  Aligned_cols=178  Identities=19%  Similarity=0.177  Sum_probs=114.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc--------cccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE--------RFRTITSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~   73 (198)
                      ..+|+++|.+|||||||+|+|.+..... ...++.+.+.....+.+.+  ..+.+|||||.+        .+...+..++
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   80 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAM   80 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS--SCCEEEC---------CHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC--ceEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            3689999999999999999999865431 2223333333333343444  679999999975        4555667788


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~  152 (198)
                      ..+|++|+|+|+.++.+... ..+...+   ...+.|+++|+||+|+.....    +..++. ..++ .++++||++|.|
T Consensus        81 ~~ad~il~vvD~~~~~~~~d-~~~~~~l---~~~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~g  151 (436)
T 2hjg_A           81 DEADVIIFMVNGREGVTAAD-EEVAKIL---YRTKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLG  151 (436)
T ss_dssp             HHCSEEEEEEETTTCSCHHH-HHHHHHH---TTCCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBT
T ss_pred             HhCCEEEEEEeCCCCCCHHH-HHHHHHH---HHcCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCC
Confidence            99999999999988655432 1222223   234789999999999864321    111122 3454 789999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          153 VEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       153 i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      +.+++++|.+.+.+..   .......+.++.+-+.++.||++
T Consensus       152 v~~L~~~i~~~l~~~~---~~~~~~~~~ki~lvG~~nvGKSS  190 (436)
T 2hjg_A          152 LGDLLDAVAEHFKNIP---ETKYNEEVIQFCLIGRPNVGKSS  190 (436)
T ss_dssp             HHHHHHHHHHTGGGCC---SSCCCTTCEEEEEECSTTSSHHH
T ss_pred             hHHHHHHHHHhcCccc---cccccccCcEEEEEcCCCCCHHH
Confidence            9999999988775321   11123455788888999999876

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.90  E-value=7.8e-23  Score=150.46  Aligned_cols=161  Identities=15%  Similarity=0.165  Sum_probs=108.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcc--cceeeeEEEEEEECCeEEEEEEEeCCCcc-----------ccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYIS--TIGVDFKIRTVEQDGKTVKLQIWDTAGQE-----------RFRTI   68 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----------~~~~~   68 (198)
                      ..++|+|+|.+|||||||+|+|++........+  +.+.......+.+.+  ..+.+|||||..           .+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~~~~  105 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEIIRC  105 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHHHHH
Confidence            468999999999999999999998776555444  344455556666777  578999999943           33444


Q ss_pred             ccccccCccEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC------HHHHHHHHHHhCC
Q 043946           69 TSSYYRGAHGIIIVYDVTDQES--FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS------YETAKAFADEIGI  140 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~------~~~~~~~~~~~~~  140 (198)
                      ...+++.+|++|+|+|+++...  ...+..+...+...  ...|+++|+||+|+.....+.      .+.+..+...++.
T Consensus       106 ~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~  183 (239)
T 3lxx_A          106 ILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGD  183 (239)
T ss_dssp             HHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHHHHHHSS
T ss_pred             HHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCC
Confidence            4556678899999999875332  22222222222221  135999999999986544332      2467778888888


Q ss_pred             cEEEEeccCC-----CCHHHHHHHHHHHHHH
Q 043946          141 PFMETSAKDS-----LNVEQAFMAMTADIKN  166 (198)
Q Consensus       141 ~~~~~S~~~~-----~~i~~~~~~l~~~~~~  166 (198)
                      .++.++...+     .++.++|+.+.+.+.+
T Consensus       184 ~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          184 RYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             SEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            8888877644     6889999988777755

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.90  E-value=6.4e-23  Score=167.35  Aligned_cols=158  Identities=22%  Similarity=0.298  Sum_probs=112.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCC-------------CCcccceeeeEEEEEEE---CCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLD-------------SYISTIGVDFKIRTVEQ---DGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~   63 (198)
                      +..+|+++|+.++|||||+++|+..  ....             +.....+.......+.+   ++..+.+.+|||||+.
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            4679999999999999999999752  1111             00111111111112222   4556899999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC---
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI---  140 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~---  140 (198)
                      ++...+...+..+|++|+|+|++++.+......|.....    .+.|+++++||+|+...+  ..+...++...+++   
T Consensus        85 dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~  158 (600)
T 2ywe_A           85 DFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPE  158 (600)
T ss_dssp             GGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGG
T ss_pred             hHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcc
Confidence            998888889999999999999999877777677765442    368999999999997643  22334455555665   


Q ss_pred             cEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          141 PFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       141 ~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      .++++||++|.|++++|++|.+.+.
T Consensus       159 ~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          159 EAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             GCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             cEEEEEeecCCCchHHHHHHHHhcc
Confidence            4899999999999999999987764

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.90  E-value=1.4e-22  Score=159.94  Aligned_cols=158  Identities=18%  Similarity=0.235  Sum_probs=102.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC---CCCCCCccccee--eeEEEEEEE-------------C--C----eEEEEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGV--DFKIRTVEQ-------------D--G----KTVKLQIW   57 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~--~~~~~~~~~-------------~--~----~~~~~~i~   57 (198)
                      ..++|+++|+.++|||||+++|.+.   .+..+..+..+.  .+....+..             +  +    ....+.+|
T Consensus         7 ~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~ii   86 (408)
T 1s0u_A            7 AEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFV   86 (408)
T ss_dssp             CCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEE
Confidence            3589999999999999999999853   233333342232  232222211             1  1    13689999


Q ss_pred             eCCCcccccccccccccCccEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHH
Q 043946           58 DTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETA  131 (198)
Q Consensus        58 D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~  131 (198)
                      |+||++.+.......+..+|++|+|+|++++    ++..++.    .+... . ..|+++++||+|+.+...  ...+++
T Consensus        87 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l-~-~~~iivv~NK~Dl~~~~~~~~~~~~i  160 (408)
T 1s0u_A           87 DSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEIL-G-IDKIIIVQNKIDLVDEKQAEENYEQI  160 (408)
T ss_dssp             ECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHT-T-CCCEEEEEECTTSSCTTTTTTHHHHH
T ss_pred             ECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHc-C-CCeEEEEEEccCCCCHHHHHHHHHHH
Confidence            9999999887777788899999999999953    3433333    22222 1 248999999999976543  234556


Q ss_pred             HHHHHHh---CCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          132 KAFADEI---GIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       132 ~~~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      .+++...   +++++++||++|.|+++++++|.+.+.
T Consensus       161 ~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          161 KEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             HHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             HHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            6665542   578999999999999999999987553

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.89  E-value=8.5e-23  Score=152.05  Aligned_cols=161  Identities=13%  Similarity=0.129  Sum_probs=108.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC-CCCCCccc-ceeeeEEEEEEECCeEEEEEEEeCCCccccccc-----------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS-YLDSYIST-IGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-----------   68 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------   68 (198)
                      ..++|+|+|.+|||||||+++|++.. +.....++ .+.......+.+.+  ..+.+|||||...+...           
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~~~   98 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQRC   98 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHHHH
Confidence            45899999999999999999999866 33333333 34444555566666  67999999997654322           


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEe-CCCCCCCCcCCH-------HHHHHHHHHh
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE--NVNKLLVGN-KCDLTDKKVVSY-------ETAKAFADEI  138 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~iiv~n-K~D~~~~~~~~~-------~~~~~~~~~~  138 (198)
                      ...+++.+|++|+|+|+++.....  ..++..+......  ..|+++++| |+|+.... ...       +++..+....
T Consensus        99 ~~~~~~~~d~il~V~d~~~~~~~~--~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~~-~~~~i~~~~~~~~~~~~~~~  175 (260)
T 2xtp_A           99 YLLSAPGPHVLLLVTQLGRYTSQD--QQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGGS-LMDYMHDSDNKALSKLVAAC  175 (260)
T ss_dssp             HHHHTTCCSEEEEEEETTCCCHHH--HHHHHHHHHHHCGGGGGGEEEEEECGGGGTTCC-HHHHHHHCCCHHHHHHHHHT
T ss_pred             HHhcCCCCcEEEEEEeCCCCCHHH--HHHHHHHHHHhCchhhccEEEEEEcccccCCcc-HHHHHHhcchHHHHHHHHHh
Confidence            123678899999999998622211  1222333333221  357777776 99997432 111       2344466666


Q ss_pred             CCcE-----EEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          139 GIPF-----METSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       139 ~~~~-----~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      +..+     +++||+++.|++++|++|.+.+...
T Consensus       176 ~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          176 GGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             TTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            5432     6899999999999999999988763

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.89  E-value=6.7e-23  Score=162.86  Aligned_cols=155  Identities=18%  Similarity=0.135  Sum_probs=104.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC-------------------------------CCCCCcccceeeeEEEEEEECCe
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS-------------------------------YLDSYISTIGVDFKIRTVEQDGK   50 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~   50 (198)
                      ..++|+++|.+++|||||+++|+...                               ...+..++.+.+.....+..++ 
T Consensus        16 ~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~~-   94 (439)
T 3j2k_7           16 EHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEK-   94 (439)
T ss_pred             ceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecCC-
Confidence            35899999999999999999995421                               1112223445555555555555 


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC--
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQES---FNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK--  124 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~--  124 (198)
                       ..+.+|||||++.+.......+..+|++|+|+|+++...   +....++...+......+.| +++++||+|+....  
T Consensus        95 -~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~~~  173 (439)
T 3j2k_7           95 -KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWS  173 (439)
T ss_pred             -eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccchH
Confidence             689999999999998888889999999999999988532   11001111112111223567 89999999985421  


Q ss_pred             c----CCHHHHHHHHHHhC------CcEEEEeccCCCCHHHHHH
Q 043946          125 V----VSYETAKAFADEIG------IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       125 ~----~~~~~~~~~~~~~~------~~~~~~S~~~~~~i~~~~~  158 (198)
                      +    ...+++..++...+      ++++++||++|.|++++++
T Consensus       174 ~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          174 NERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            1    11233444554544      4699999999999999766

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.89  E-value=1.5e-23  Score=166.91  Aligned_cols=152  Identities=18%  Similarity=0.234  Sum_probs=102.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------ccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TSSYY   73 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~   73 (198)
                      .++|+++|++|||||||+|+|.+... .....++.+.+.....+.+++  ..+.+|||||...+...        ...++
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~~  301 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQAA  301 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CCC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhhh
Confidence            47899999999999999999987532 223345555555555666777  67899999997654332        23367


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|++++.+... ..|+..+    . +.|+++|+||+|+.......  ....+.  ...+++++||++|.|+
T Consensus       302 ~~aD~vl~VvD~s~~~~~~~-~~i~~~l----~-~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi  371 (462)
T 3geh_A          302 NTADLVLLTIDAATGWTTGD-QEIYEQV----K-HRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGI  371 (462)
T ss_dssp             CSCSEEEEEEETTTCSCHHH-HHHHHHH----T-TSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSH
T ss_pred             hcCCEEEEEeccCCCCCHHH-HHHHHhc----c-CCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCH
Confidence            88999999999998765433 3344333    1 36999999999997654332  111111  3468999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 043946          154 EQAFMAMTADIKN  166 (198)
Q Consensus       154 ~~~~~~l~~~~~~  166 (198)
                      ++++++|.+.+..
T Consensus       372 ~eL~~~i~~~~~~  384 (462)
T 3geh_A          372 DSLETAILEIVQT  384 (462)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988764

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.89  E-value=2.8e-22  Score=157.94  Aligned_cols=161  Identities=16%  Similarity=0.208  Sum_probs=111.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEE----------------EEEEE---CCeEEEEEEEeCCCc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKI----------------RTVEQ---DGKTVKLQIWDTAGQ   62 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~----------------~~~~~---~~~~~~~~i~D~~g~   62 (198)
                      ..++|+++|.+++|||||+++|.+.......... ..+...                .....   ......+.+||+||+
T Consensus         7 ~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPGh   85 (403)
T 3sjy_A            7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYA-ETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGH   85 (403)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEE-EEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccccCcc-ccceeeccccccccceecccccccccccccccccceEEEEECCCc
Confidence            4689999999999999999999874332211000 000000                00000   112368999999999


Q ss_pred             ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHHh--
Q 043946           63 ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADEI--  138 (198)
Q Consensus        63 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~--  138 (198)
                      +.+.......+..+|++|+|+|++++.++.....++..+....  ..|+++++||+|+.+....  ..+++.++....  
T Consensus        86 ~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~  163 (403)
T 3sjy_A           86 EVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWA  163 (403)
T ss_dssp             GGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTT
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhhCC
Confidence            9999889999999999999999998765666666766665543  2589999999999754321  112222222222  


Q ss_pred             -CCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          139 -GIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       139 -~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                       +++++++||++|.|+++++++|.+.+.
T Consensus       164 ~~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          164 ENVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCCEEEEEECCCCcChHHHHHHHHHhCC
Confidence             468999999999999999999987653

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.89  E-value=3.8e-22  Score=154.69  Aligned_cols=159  Identities=16%  Similarity=0.121  Sum_probs=110.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc---------ccccccccccCc
Q 043946            6 LLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER---------FRTITSSYYRGA   76 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~~~~   76 (198)
                      |+++|++|||||||+|+|.+........+..+.+.....+.+++  ..+.+|||+|.-.         +... ...+..+
T Consensus       182 V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~~a  258 (364)
T 2qtf_A          182 IGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAKYS  258 (364)
T ss_dssp             EEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGGGS
T ss_pred             EEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHHhC
Confidence            89999999999999999998765433344444455667777887  5689999999621         2221 2247889


Q ss_pred             cEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHHh---CCcEEEEeccCC
Q 043946           77 HGIIIVYDVTDQE--SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFADEI---GIPFMETSAKDS  150 (198)
Q Consensus        77 d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~~---~~~~~~~S~~~~  150 (198)
                      |++++|+|++++.  ....+..|...+......+.|+++|+||+|+...... ..+.+..++...   +.+++++|++++
T Consensus       259 D~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g  338 (364)
T 2qtf_A          259 DALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKR  338 (364)
T ss_dssp             SEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTT
T ss_pred             CEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCC
Confidence            9999999999876  5556666776666655457899999999998653210 011233334554   236899999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q 043946          151 LNVEQAFMAMTADIKNR  167 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~~  167 (198)
                      .|+++++++|.+.+...
T Consensus       339 ~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          339 TNLELLRDKIYQLATQL  355 (364)
T ss_dssp             BSHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhccc
Confidence            99999999999877653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.89  E-value=4.5e-25  Score=177.86  Aligned_cols=159  Identities=18%  Similarity=0.161  Sum_probs=114.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.++|+++|++++|||||+++|.+..+.....++.+.+.....+..++. ..+.+|||||++.+..++..++..+|++|+
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g-~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSG-EKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCS-SCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCC-CEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            5689999999999999999999876554444555554444444444221 468999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHH---HHHh--CCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAF---ADEI--GIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~---~~~~--~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.....    ...+......+.|+++++||+|+.+.... ..+++..+   +..+  .++++++||++|.|+++
T Consensus        82 VVDa~dg~~~qt----~e~l~~~~~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~e  157 (537)
T 3izy_P           82 VVAADDGVMKQT----VESIQHAKDAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMA  157 (537)
T ss_dssp             ECBSSSCCCHHH----HHHHHHHHTTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHH
T ss_pred             EEECCCCccHHH----HHHHHHHHHcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchh
Confidence            999998654332    33333333457899999999999753211 11222211   1111  24789999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          156 AFMAMTADIK  165 (198)
Q Consensus       156 ~~~~l~~~~~  165 (198)
                      +|++|...+.
T Consensus       158 Lle~I~~l~~  167 (537)
T 3izy_P          158 LAEATIALAE  167 (537)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhh
Confidence            9999987654

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.89  E-value=1.7e-22  Score=159.57  Aligned_cols=158  Identities=18%  Similarity=0.251  Sum_probs=107.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC---CCCCCCcccceee--eEEEEEEE-------------C--C----eEEEEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD---SYLDSYISTIGVD--FKIRTVEQ-------------D--G----KTVKLQIW   57 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~---~~~~~~~~~~~~~--~~~~~~~~-------------~--~----~~~~~~i~   57 (198)
                      ..++|+++|+.++|||||+++|.+.   ....+..+..+..  +....+..             +  +    ....+.+|
T Consensus         9 ~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~ii   88 (410)
T 1kk1_A            9 AEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFI   88 (410)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEE
Confidence            3589999999999999999999853   2333333433332  22222211             1  1    13689999


Q ss_pred             eCCCcccccccccccccCccEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc--CCHHHH
Q 043946           58 DTAGQERFRTITSSYYRGAHGIIIVYDVTDQ----ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV--VSYETA  131 (198)
Q Consensus        58 D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~  131 (198)
                      |+||++.+.......+..+|++|+|+|++++    ++..++.    .+....  ..|+++++||+|+.+...  ...+++
T Consensus        89 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i  162 (410)
T 1kk1_A           89 DAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQIIG--QKNIIIAQNKIELVDKEKALENYRQI  162 (410)
T ss_dssp             ECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             ECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHcC--CCcEEEEEECccCCCHHHHHHHHHHH
Confidence            9999999887777788899999999999964    3433332    232222  258999999999975431  122344


Q ss_pred             HHHHHH---hCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          132 KAFADE---IGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       132 ~~~~~~---~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      .+++..   .+++++++||++|.|+++++++|.+.+.
T Consensus       163 ~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          163 KEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            444443   3578999999999999999999887554

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.88  E-value=6.8e-23  Score=164.80  Aligned_cols=150  Identities=17%  Similarity=0.166  Sum_probs=98.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--C-----------------------------CCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--Y-----------------------------LDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .+||+++|.+++|||||+++|+...  +                             ..+..+..+.+.....+...+  
T Consensus        33 ~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--  110 (483)
T 3p26_A           33 HLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR--  110 (483)
T ss_dssp             EEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC--
Confidence            5899999999999999999997531  1                             111122333333444444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHH------HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNN------VKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~------~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+.||||||++.+......++..+|++|+|+|++++.+...      .......+... . ..|+++|+||+|+.+.+.
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~-~~~iIvviNK~Dl~~~~~  188 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-G-IHNLIIAMNKMDNVDWSQ  188 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-T-CCCEEEEEECGGGGTTCH
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-C-CCcEEEEEECcCcccchH
Confidence            789999999999999889999999999999999998643221      12222222222 1 246999999999976433


Q ss_pred             CCHHHH----HHHHHHh-----CCcEEEEeccCCCCHHHH
Q 043946          126 VSYETA----KAFADEI-----GIPFMETSAKDSLNVEQA  156 (198)
Q Consensus       126 ~~~~~~----~~~~~~~-----~~~~~~~S~~~~~~i~~~  156 (198)
                      ...+++    ..++...     +++++++||++|.|++++
T Consensus       189 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          189 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            333333    3333333     357899999999999853

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.88  E-value=6.2e-22  Score=157.53  Aligned_cols=160  Identities=24%  Similarity=0.254  Sum_probs=106.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccc-----------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTIT-----------   69 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------   69 (198)
                      ..++|+++|++|||||||+|+|.+.... ....++.+.+.....+.+++.  .+.+|||+|........           
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHH
Confidence            3589999999999999999999976531 223334444444456677774  67899999974332111           


Q ss_pred             -cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-HHHH----hCCcEE
Q 043946           70 -SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-FADE----IGIPFM  143 (198)
Q Consensus        70 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~  143 (198)
                       ..++..+|++++|+|+.++.+.... .+...+..   .+.|+++|+||+|+.+.+....++..+ +...    .+++++
T Consensus       257 ~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (439)
T 1mky_A          257 VVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLI  332 (439)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEE
Confidence             2356778999999999876554332 22222322   368999999999997654434444332 2222    247899


Q ss_pred             EEeccCCCCHHHHHHHHHHHHHHh
Q 043946          144 ETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ++||++|.|++++|+.+.+.+.+.
T Consensus       333 ~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          333 FTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999877654

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.88  E-value=6.2e-22  Score=150.22  Aligned_cols=156  Identities=17%  Similarity=0.144  Sum_probs=106.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc---------ccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE---------RFRTITSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~~~   72 (198)
                      ..+|+|+|++|||||||+|+|++..... ...+..+.......+..++  .++.+|||||..         .+......+
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~   85 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASSS   85 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHHHHH
Confidence            3579999999999999999999875421 1222222222222344444  689999999986         233445678


Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSL  151 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~  151 (198)
                      +..+|++++|+|+++ -+  ....++-  ......+.|+++++||+|+........+.+..+...++. .++++||+++.
T Consensus        86 l~~~D~vl~Vvd~~~-~~--~~~~~i~--~~l~~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~  160 (301)
T 1ega_A           86 IGDVELVIFVVEGTR-WT--PDDEMVL--NKLREGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGL  160 (301)
T ss_dssp             CCCEEEEEEEEETTC-CC--HHHHHHH--HHHHSSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTT
T ss_pred             HhcCCEEEEEEeCCC-CC--HHHHHHH--HHHHhcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCC
Confidence            899999999999976 22  1222221  122234689999999999865222223444555555565 68999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 043946          152 NVEQAFMAMTADIK  165 (198)
Q Consensus       152 ~i~~~~~~l~~~~~  165 (198)
                      |+++++++|.+.+.
T Consensus       161 ~v~~l~~~i~~~l~  174 (301)
T 1ega_A          161 NVDTIAAIVRKHLP  174 (301)
T ss_dssp             THHHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHhCC
Confidence            99999999887653

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.88  E-value=2.1e-22  Score=162.78  Aligned_cols=116  Identities=16%  Similarity=0.113  Sum_probs=84.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC------------------CC----CCcccceeeeEEEEEEECCeEEEEEEEeC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY------------------LD----SYISTIGVDFKIRTVEQDGKTVKLQIWDT   59 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~------------------~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   59 (198)
                      ...+|+|+|.+|+|||||+++|+....                  ..    ...++.+.......+.+.+  +.+.+|||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~liDT   89 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLINLLDT   89 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEEEECC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEEEEEC
Confidence            357899999999999999999962110                  00    0012223334445556666  78999999


Q ss_pred             CCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           60 AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        60 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      ||+.++...+..++..+|++|+|+|++++........|. .+.   ..++|+++|+||+|+...
T Consensus        90 PG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~---~~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           90 PGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCR---LRHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             CCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHH---TTTCCEEEEEECTTSCCS
T ss_pred             CCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHH---HcCCCEEEEEeCCCCccc
Confidence            999999988999999999999999999876655544443 222   337899999999999643

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.88  E-value=7.6e-23  Score=153.44  Aligned_cols=159  Identities=17%  Similarity=0.227  Sum_probs=91.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC-CC-------cccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------c
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD-SY-------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------R   66 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~-~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------~   66 (198)
                      ..++|+|+|.+|+|||||+|+|.+..... .+       .++.+.+.....+..++..+.+.+|||||....       .
T Consensus         7 ~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~   86 (274)
T 3t5d_A            7 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ   86 (274)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHH
Confidence            46899999999999999999987654332 22       445555555555555665579999999996321       1


Q ss_pred             ccc-------cccc-------------cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           67 TIT-------SSYY-------------RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        67 ~~~-------~~~~-------------~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                      .+.       ..++             .++|+++++++.........-..++..+   .. ++|+++|+||+|+......
T Consensus        87 ~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l---~~-~~pvi~V~nK~D~~~~~e~  162 (274)
T 3t5d_A           87 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRL---HE-KVNIIPLIAKADTLTPEEC  162 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHH---TT-TSCEEEEESSGGGSCHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHH---hc-cCCEEEEEeccCCCCHHHH
Confidence            111       1122             3478999999876522111112333333   22 6899999999998643221


Q ss_pred             C--HHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          127 S--YETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       127 ~--~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      .  .+.+.+.+...+++++++|+.++.|+++++++|.+.+
T Consensus       163 ~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          163 QQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            1  2345556667789999999999999999999887643

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.88  E-value=1.7e-23  Score=162.40  Aligned_cols=164  Identities=22%  Similarity=0.320  Sum_probs=89.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCc--------ccceeeeEEEEEEECCeEEEEEEEeCCCc-------ccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYI--------STIGVDFKIRTVEQDGKTVKLQIWDTAGQ-------ERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~~~   65 (198)
                      ..++|+|+|++|+|||||+++|.+... ...+.        ++.+.......+...+....+.+|||||.       +.+
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            468999999999999999999875432 22221        33333333333444566678999999998       555


Q ss_pred             ccccc-------ccccCc-------------cEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           66 RTITS-------SYYRGA-------------HGIIIVYDVTDQESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        66 ~~~~~-------~~~~~~-------------d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      ..++.       .++..+             |+++|+++.. ..++..+. .++..+    ..++|+|+|+||+|+...+
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~  190 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLK  190 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHH
Confidence            54443       444332             3455555542 23333332 233322    3578999999999997654


Q ss_pred             cCCH--HHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhcC
Q 043946          125 VVSY--ETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ  171 (198)
Q Consensus       125 ~~~~--~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~  171 (198)
                      .+..  +++..++..++++++++||+++.+ ++.|.++.+.+.+..+..
T Consensus       191 ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip~~  238 (361)
T 2qag_A          191 ERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIPFS  238 (361)
T ss_dssp             HHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTCSCE
T ss_pred             HHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCCCC
Confidence            3332  456666667789999999999999 999999999988766543

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.87  E-value=3e-23  Score=165.84  Aligned_cols=179  Identities=19%  Similarity=0.179  Sum_probs=113.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC--------ccccccccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG--------QERFRTITSSYYR   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g--------~~~~~~~~~~~~~   74 (198)
                      ..+|+|+|.+|||||||+|+|.+.... ....+.+.+..............+.+|||||        .+.+......++.
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~  101 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD  101 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHh
Confidence            468999999999999999999986543 1222233333333333443346899999999        5566667778889


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCC-cEEEEeccCCCCH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGI-PFMETSAKDSLNV  153 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~S~~~~~~i  153 (198)
                      .+|++|||+|..+...... ..+...+   ...+.|+++|+||+|+.+..    +...++. ..+. ..+++||.+|.|+
T Consensus       102 ~ad~il~VvD~~~~~~~~d-~~l~~~l---~~~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv  172 (456)
T 4dcu_A          102 EADVIIFMVNGREGVTAAD-EEVAKIL---YRTKKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGL  172 (456)
T ss_dssp             HCSEEEEEEESSSCSCHHH-HHHHHHH---TTCCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTH
T ss_pred             hCCEEEEEEeCCCCCChHH-HHHHHHH---HHcCCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccch
Confidence            9999999999876432211 1222222   23578999999999986432    1111111 2233 5689999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          154 EQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       154 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      .++++++.+.+...   ..........++.+.+.+..+|++
T Consensus       173 ~~L~~~i~~~l~~~---~~~~~~~~~~ki~ivG~~~vGKSs  210 (456)
T 4dcu_A          173 GDLLDAVAEHFKNI---PETKYNEEVIQFCLIGRPNVGKSS  210 (456)
T ss_dssp             HHHHHHHHTTGGGS---CSSCCCTTCEEEEEECSTTSSHHH
T ss_pred             HHHHHHHHhhcccc---cccccccccceeEEecCCCCCHHH
Confidence            99999998766432   112233455677888888888875

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.87  E-value=8.3e-22  Score=151.96  Aligned_cols=125  Identities=23%  Similarity=0.260  Sum_probs=101.4

Q ss_pred             EEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCCc
Q 043946           42 IRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTD----------QESFNNVKQWLNEIDRYA-SENVN  110 (198)
Q Consensus        42 ~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~p  110 (198)
                      ...+.+++  +.+.+||++|++.+...|..++++++++|||||+++          .+++.....|+..+.... ..+.|
T Consensus       185 ~~~~~~~~--~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~p  262 (353)
T 1cip_A          185 ETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTS  262 (353)
T ss_dssp             EEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSE
T ss_pred             EEEEeeCC--eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCc
Confidence            34455554  789999999999999999999999999999999998          456888888877765532 24799


Q ss_pred             EEEEEeCCCCCCCC---------------cCCHHHHHHHHHH-----------hCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          111 KLLVGNKCDLTDKK---------------VVSYETAKAFADE-----------IGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       111 ~iiv~nK~D~~~~~---------------~~~~~~~~~~~~~-----------~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +++++||+|+....               .+..+++..++..           .++.++++||+++.||+++|+++.+.+
T Consensus       263 iiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i  342 (353)
T 1cip_A          263 IILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVI  342 (353)
T ss_dssp             EEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHH
T ss_pred             EEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHH
Confidence            99999999985321               2567788777762           456889999999999999999999998


Q ss_pred             HHhh
Q 043946          165 KNRM  168 (198)
Q Consensus       165 ~~~~  168 (198)
                      .+..
T Consensus       343 ~~~~  346 (353)
T 1cip_A          343 IKNN  346 (353)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            7644

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.87  E-value=1.4e-21  Score=159.84  Aligned_cols=160  Identities=16%  Similarity=0.139  Sum_probs=106.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-----------C-----eEEEEEEEeCCCcccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-----------G-----KTVKLQIWDTAGQERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----------~-----~~~~~~i~D~~g~~~~   65 (198)
                      +.++|+++|++++|||||+++|.+...........+.+.....+...           +     ....+.+|||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            46789999999999999999998654432211111111111111110           0     1125899999999999


Q ss_pred             cccccccccCccEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-------------CH-
Q 043946           66 RTITSSYYRGAHGIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-------------SY-  128 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-------------~~-  128 (198)
                      ..++...+..+|++|+|+|+++   ++++..+..    +..   .+.|+++++||+|+......             .. 
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~  156 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHH
Confidence            9999999999999999999998   555544332    222   36899999999998642110             00 


Q ss_pred             --H-------HHHHHHHHhC---------------CcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          129 --E-------TAKAFADEIG---------------IPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       129 --~-------~~~~~~~~~~---------------~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                        +       ++.......+               ++++++||++|.|+++++++|...+....
T Consensus       157 v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~~  220 (594)
T 1g7s_A          157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccccc
Confidence              0       1111122222               37899999999999999999998776543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.87  E-value=6.8e-22  Score=140.58  Aligned_cols=114  Identities=22%  Similarity=0.359  Sum_probs=86.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCC---CcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccC---
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDS---YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRG---   75 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~---   75 (198)
                      ..++|+|+|++|||||||+++|.+..+...   ..++.+.+       +  ....+.+||+||.+.+...+..++..   
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~-------~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~  117 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD-------Y--DGSGVTLVDFPGHVKLRYKLSDYLKTRAK  117 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSSCC------------C-------C--CCTTCSEEEETTCCBSSCCHHHHHHHHGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeee-------e--cCCeEEEEECCCCchHHHHHHHHHHhhcc
Confidence            468999999999999999999998765431   11222111       1  23578999999999887777777765   


Q ss_pred             -ccEEEEEEECC-ChhhHHHHHHHHHHHHHh----cCCCCcEEEEEeCCCCCCCC
Q 043946           76 -AHGIIIVYDVT-DQESFNNVKQWLNEIDRY----ASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        76 -~d~~i~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~p~iiv~nK~D~~~~~  124 (198)
                       +|++|+|+|++ ++.++..+..|+..+...    ...+.|+++|+||+|+.+..
T Consensus       118 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          118 FVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             GEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             cCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence             89999999999 888998888887766543    23478999999999997654

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.87  E-value=8.8e-22  Score=154.76  Aligned_cols=156  Identities=16%  Similarity=0.125  Sum_probs=106.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-------CCC---------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-------YLD---------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-------~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|++++|||||+++|.+..       +..         +.....+.+.....+...  ...+.+||+||+++|.
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~--~~~~~iiDtpG~~~f~   80 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTA--ARHYAHTDCPGHADYV   80 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECS--SCEEEEEECSSHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccC--CeEEEEEECCChHHHH
Confidence            5899999999999999999998631       110         001222222222233333  3679999999999988


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCc---CCHHHHHHHHHHhC---
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKV---VSYETAKAFADEIG---  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~---~~~~~~~~~~~~~~---  139 (198)
                      .....++..+|++|+|+|+++.........| ..+..   .+.| +++++||+|+.+...   ...+++.+++..++   
T Consensus        81 ~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~  156 (397)
T 1d2e_A           81 KNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKG  156 (397)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence            8888889999999999999985433322333 33333   2678 689999999874221   11245566676665   


Q ss_pred             --CcEEEEeccCCCC----------HHHHHHHHHHHH
Q 043946          140 --IPFMETSAKDSLN----------VEQAFMAMTADI  164 (198)
Q Consensus       140 --~~~~~~S~~~~~~----------i~~~~~~l~~~~  164 (198)
                        ++++++||++|.|          +.++++.|.+.+
T Consensus       157 ~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             ccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence              5899999999764          777777776544

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.87  E-value=3.4e-22  Score=155.37  Aligned_cols=147  Identities=7%  Similarity=0.072  Sum_probs=107.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      +|+++|.+++|||||+++|.        ....+.+.....+..++  ..+.+|||||++++.......+..+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~--~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEG--RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSS--SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCC--eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            89999999999999999998        22333334444454444  579999999999987777778899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEe-CCCCCCCCcCC--HHHHHHHHHHhC---CcEEE--EeccC---CCC
Q 043946           85 VTDQESFNNVKQWLNEIDRYASENVNK-LLVGN-KCDLTDKKVVS--YETAKAFADEIG---IPFME--TSAKD---SLN  152 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~~~~p~-iiv~n-K~D~~~~~~~~--~~~~~~~~~~~~---~~~~~--~S~~~---~~~  152 (198)
                       ++ .......+++..+...   +.|. ++++| |+|+ +.....  .+++.+++...+   +++++  +||++   +.|
T Consensus        93 -~~-g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQ-GLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TT-CCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CC-CCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             54 3334445555545443   5677 88899 9998 432211  134444444433   68999  99999   999


Q ss_pred             HHHHHHHHHHHHHHh
Q 043946          153 VEQAFMAMTADIKNR  167 (198)
Q Consensus       153 i~~~~~~l~~~~~~~  167 (198)
                      +++++++|.+.+...
T Consensus       167 i~~L~~~l~~~~~~~  181 (370)
T 2elf_A          167 VDELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccc
Confidence            999999999887653

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.86  E-value=4.4e-24  Score=170.81  Aligned_cols=152  Identities=18%  Similarity=0.241  Sum_probs=106.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +..+|+++|++++|||||+++|....+.....++.+.+.....+..++  ..+.+|||||++.|..++...+..+|++|+
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aIL   80 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVL   80 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEE
Confidence            568999999999999999999986544333333333333333344444  478999999999999999999999999999


Q ss_pred             EEECCCh---hhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC--cCCHH--HHHHHHHHhC--CcEEEEeccCCCC
Q 043946           82 VYDVTDQ---ESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK--VVSYE--TAKAFADEIG--IPFMETSAKDSLN  152 (198)
Q Consensus        82 v~d~~~~---~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~--~~~~~--~~~~~~~~~~--~~~~~~S~~~~~~  152 (198)
                      |+|++++   ++...+    ..+   ...+.|+++++||+|+.+..  .+..+  +...+...++  ++++++||++|.|
T Consensus        81 VVda~~g~~~qT~e~l----~~~---~~~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~g  153 (501)
T 1zo1_I           81 VVAADDGVMPQTIEAI----QHA---KAAQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTG  153 (501)
T ss_dssp             EEETTTBSCTTTHHHH----HHH---HHTTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTT
T ss_pred             EeecccCccHHHHHHH----HHH---HhcCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccC
Confidence            9999884   333222    222   22368999999999997532  11100  0000112222  6899999999999


Q ss_pred             HHHHHHHHHH
Q 043946          153 VEQAFMAMTA  162 (198)
Q Consensus       153 i~~~~~~l~~  162 (198)
                      ++++|++|..
T Consensus       154 I~eLle~I~~  163 (501)
T 1zo1_I          154 IDELLDAILL  163 (501)
T ss_dssp             CTTHHHHTTT
T ss_pred             cchhhhhhhh
Confidence            9999999864

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.86  E-value=4.8e-22  Score=157.91  Aligned_cols=150  Identities=22%  Similarity=0.213  Sum_probs=102.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC--CCCCC----------c---------------------ccceeeeEEEEEEECC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS--YLDSY----------I---------------------STIGVDFKIRTVEQDG   49 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~--~~~~~----------~---------------------~~~~~~~~~~~~~~~~   49 (198)
                      .++|+++|.+++|||||+++|+...  +....          .                     ...+.+.....+...+
T Consensus        24 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~~~  103 (434)
T 1zun_B           24 MLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTAK  103 (434)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECSS
T ss_pred             ceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeecCC
Confidence            5899999999999999999997542  11100          0                     1122222333344444


Q ss_pred             eEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCCCcC--
Q 043946           50 KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENV-NKLLVGNKCDLTDKKVV--  126 (198)
Q Consensus        50 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p~iiv~nK~D~~~~~~~--  126 (198)
                        ..+.+|||||++.+......++..+|++|+|+|++++... ....++..+...   +. |+++|+||+|+.+....  
T Consensus       104 --~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~~~~  177 (434)
T 1zun_B          104 --RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL---GIKHIVVAINKMDLNGFDERVF  177 (434)
T ss_dssp             --EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT---TCCEEEEEEECTTTTTSCHHHH
T ss_pred             --ceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCeEEEEEEcCcCCcccHHHH
Confidence              6799999999999988888889999999999999985432 223344333332   33 68999999999753211  


Q ss_pred             --CHHHHHHHHHHhC-----CcEEEEeccCCCCHHHHHH
Q 043946          127 --SYETAKAFADEIG-----IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       127 --~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~~~  158 (198)
                        ..+++..+++.++     ++++++||++|.|++++++
T Consensus       178 ~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          178 ESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence              1244555666666     6799999999999998544

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.86  E-value=9.6e-23  Score=161.94  Aligned_cols=154  Identities=18%  Similarity=0.195  Sum_probs=103.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCCCC-----------------------------cccceeeeEEEEEEECCe
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLDSY-----------------------------ISTIGVDFKIRTVEQDGK   50 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   50 (198)
                      ..++|+++|++++|||||+++|+..  .+....                             .+..+.+.....+...+ 
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~-   83 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK-   83 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS-
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC-
Confidence            3589999999999999999999853  222110                             12223333333344444 


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHh----cCCCC-cEEEEEeCCCCCCCC-
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY----ASENV-NKLLVGNKCDLTDKK-  124 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~----~~~~~-p~iiv~nK~D~~~~~-  124 (198)
                       ..+.+|||||++++......++..+|++|+|+|+++ .++.....|.....++    ...+. |+++++||+|+.+.. 
T Consensus        84 -~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~  161 (435)
T 1jny_A           84 -YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  161 (435)
T ss_dssp             -CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             -eEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccc
Confidence             689999999999998888889999999999999998 5565433222221111    11233 689999999997521 


Q ss_pred             -----cCCHHHHHHHHHHhC-----CcEEEEeccCCCCHHHHHH
Q 043946          125 -----VVSYETAKAFADEIG-----IPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       125 -----~~~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~~~  158 (198)
                           ....+++..++..++     ++++++||++|.|+.++++
T Consensus       162 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          162 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence                 112345666666666     6799999999999987654

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.86  E-value=1.5e-22  Score=161.95  Aligned_cols=154  Identities=18%  Similarity=0.154  Sum_probs=91.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCC-----------------------------CCcccceeeeEEEEEEECCe
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLD-----------------------------SYISTIGVDFKIRTVEQDGK   50 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   50 (198)
                      ..++|+++|+.++|||||+++|+.  +.+..                             +.....+.+.....+..++ 
T Consensus        42 ~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~-  120 (467)
T 1r5b_A           42 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH-  120 (467)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS-
T ss_pred             CeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC-
Confidence            358999999999999999999974  21110                             0011222223333444454 


Q ss_pred             EEEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC--
Q 043946           51 TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK--  124 (198)
Q Consensus        51 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~--  124 (198)
                       ..+.+||+||++.|.......+..+|++|+|+|++++.   +|....++...+......++| +++++||+|+.+..  
T Consensus       121 -~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~  199 (467)
T 1r5b_A          121 -RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWS  199 (467)
T ss_dssp             -EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSC
T ss_pred             -eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCcccc
Confidence             68999999999999888888999999999999999863   222112222222222223677 99999999996421  


Q ss_pred             ----cCCHHHHHHHHHHh-C------CcEEEEeccCCCCHHHHH
Q 043946          125 ----VVSYETAKAFADEI-G------IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus       125 ----~~~~~~~~~~~~~~-~------~~~~~~S~~~~~~i~~~~  157 (198)
                          ....+++..++... +      ++++++||++|.|+.+++
T Consensus       200 ~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          200 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                01123455666665 3      569999999999998876

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.86  E-value=9.5e-22  Score=155.03  Aligned_cols=145  Identities=16%  Similarity=0.130  Sum_probs=100.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--------CCCCC---------CcccceeeeEEEEEEECCeEEEEEEEeCCCccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--------SYLDS---------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--------~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   64 (198)
                      ..++|+++|++++|||||+++|.+.        .+...         .....+.+.....+...+  ..+.+|||||+++
T Consensus        10 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~~~iiDtpG~~~   87 (405)
T 2c78_A           10 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHAD   87 (405)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGG
T ss_pred             CeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCC--eEEEEEECCChHH
Confidence            3589999999999999999999862        11110         012223333333333333  6799999999999


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHhC-
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEIG-  139 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~-  139 (198)
                      +......++..+|++|+|+|++++... ....++..+...   +.| +++++||+|+.+....   ..+++..++..++ 
T Consensus        88 f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~~---~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~  163 (405)
T 2c78_A           88 YIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEF  163 (405)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcc
Confidence            988888889999999999999886432 334444444432   578 8899999999742211   1234556666665 


Q ss_pred             ----CcEEEEeccCCCC
Q 043946          140 ----IPFMETSAKDSLN  152 (198)
Q Consensus       140 ----~~~~~~S~~~~~~  152 (198)
                          ++++++||++|.|
T Consensus       164 ~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          164 PGDEVPVIRGSALLALE  180 (405)
T ss_dssp             CTTTSCEEECCHHHHHH
T ss_pred             cccCCCEEEccHHHhhh
Confidence                6899999999977

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.86  E-value=6.2e-22  Score=162.65  Aligned_cols=152  Identities=18%  Similarity=0.171  Sum_probs=101.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCC-------------------------------cccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSY-------------------------------ISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|.+|+|||||+++|++....-..                               .++++.+.....+...+  
T Consensus       167 ~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~--  244 (611)
T 3izq_1          167 HLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR--  244 (611)
T ss_dssp             CCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS--
T ss_pred             ceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC--
Confidence            589999999999999999999864221110                               12333333444444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhh---HHHHHHHHHHHHHhcCCC-CcEEEEEeCCCCCCCCcCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQES---FNNVKQWLNEIDRYASEN-VNKLLVGNKCDLTDKKVVS  127 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~~~~~~~~~~~~~~~~~-~p~iiv~nK~D~~~~~~~~  127 (198)
                      ..+.||||||++.+......++..+|++|+|+|++++..   +....++...+......+ .|+++|+||+|+.+.....
T Consensus       245 ~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~~~~~  324 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQR  324 (611)
T ss_dssp             CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTTCHHH
T ss_pred             ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccchhHHH
Confidence            689999999999998888999999999999999987421   100112222222222223 4599999999997633222


Q ss_pred             H----HHHHHHHHHhC-----CcEEEEeccCCCCHHHH
Q 043946          128 Y----ETAKAFADEIG-----IPFMETSAKDSLNVEQA  156 (198)
Q Consensus       128 ~----~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~  156 (198)
                      .    +++..++...+     ++++++||++|.|+.++
T Consensus       325 ~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          325 FEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2    23334444444     58999999999999977

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.85  E-value=8.2e-21  Score=144.52  Aligned_cols=127  Identities=20%  Similarity=0.214  Sum_probs=99.9

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCC
Q 043946           41 KIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT----------DQESFNNVKQWLNEIDRYA-SENV  109 (198)
Q Consensus        41 ~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~  109 (198)
                      ....+...+  +.+.+||++|++.+...|..++++++++|||||++          +.+++.....|+..+.... ..+.
T Consensus       158 ~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~  235 (327)
T 3ohm_A          158 IEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNS  235 (327)
T ss_dssp             EEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTC
T ss_pred             EEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCc
Confidence            444555565  88999999999999999999999999999999765          5667777777776664432 2578


Q ss_pred             cEEEEEeCCCCCCCC----------------cCCHHHHHHHHH----------HhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          110 NKLLVGNKCDLTDKK----------------VVSYETAKAFAD----------EIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       110 p~iiv~nK~D~~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |+++++||+|+.+.+                ....+++.+++.          ..++.++++||+++.||+++|..+.+.
T Consensus       236 ~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~  315 (327)
T 3ohm_A          236 SVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDT  315 (327)
T ss_dssp             EEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             eEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHH
Confidence            999999999986432                356777777743          344678999999999999999999999


Q ss_pred             HHHhhh
Q 043946          164 IKNRMA  169 (198)
Q Consensus       164 ~~~~~~  169 (198)
                      +.+...
T Consensus       316 Il~~~l  321 (327)
T 3ohm_A          316 ILQLNL  321 (327)
T ss_dssp             HHHTTC
T ss_pred             HHHHhH
Confidence            987543

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.84  E-value=6.5e-22  Score=157.96  Aligned_cols=149  Identities=17%  Similarity=0.168  Sum_probs=101.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--CCCCC-----------------------------CcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--SYLDS-----------------------------YISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|.+++|||||+++|+..  .+...                             .....+.+.....+...+  
T Consensus         7 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~--   84 (458)
T 1f60_A            7 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK--   84 (458)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS--
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC--
Confidence            589999999999999999999853  12110                             012223333333444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hHH---HHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SFN---NVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~  124 (198)
                      ..+.+|||||++.|......++..+|++|+|+|++++.   +|.   ....++..+..   .+.| +++++||+|+.+..
T Consensus        85 ~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~~~~  161 (458)
T 1f60_A           85 YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVKWD  161 (458)
T ss_dssp             EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGTTC
T ss_pred             ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEccccccCC
Confidence            68999999999999888888999999999999998753   121   12222222222   2455 89999999997421


Q ss_pred             c----CCHHHHHHHHHHhC-----CcEEEEeccCCCCHHHH
Q 043946          125 V----VSYETAKAFADEIG-----IPFMETSAKDSLNVEQA  156 (198)
Q Consensus       125 ~----~~~~~~~~~~~~~~-----~~~~~~S~~~~~~i~~~  156 (198)
                      .    ...+++..++..++     ++++++||++|.|+.++
T Consensus       162 ~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          162 ESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             HHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            1    11234555666665     68999999999999755

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.83  E-value=1.4e-21  Score=148.19  Aligned_cols=159  Identities=19%  Similarity=0.219  Sum_probs=99.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC------cccce--------------------eee---------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY------ISTIG--------------------VDF---------------   40 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~------~~~~~--------------------~~~---------------   40 (198)
                      ..++|+|+|.+|||||||+|+|++..+.+..      .++..                    .+.               
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i~  104 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHhc
Confidence            3579999999999999999999987763211      12100                    000               


Q ss_pred             ----------EEEEEEECCeEEEEEEEeCCCcc-------------cccccccccccCccEEE-EEEECCChhhHHHHHH
Q 043946           41 ----------KIRTVEQDGKTVKLQIWDTAGQE-------------RFRTITSSYYRGAHGII-IVYDVTDQESFNNVKQ   96 (198)
Q Consensus        41 ----------~~~~~~~~~~~~~~~i~D~~g~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~   96 (198)
                                ....+... ....+.+|||||..             .+..+...++..++.+| +|+|+++.........
T Consensus       105 g~~~gi~~~~~~~~~~~~-~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          105 GTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             SSTTCCCSCCEEEEEEET-TCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             ccCCCccccceEEEEeCC-CCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                      00000111 02579999999964             23345566778888776 7999987544333223


Q ss_pred             HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh--C-CcEEEEeccCCCCHHHHHHHHHHHH
Q 043946           97 WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI--G-IPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus        97 ~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~--~-~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +...+   ...+.|+++|+||+|+.+......+.+.......  + .+++++||++|.|++++|++|.+..
T Consensus       184 ~~~~~---~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          184 IAKEV---DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             HHHHH---CTTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             HHHHh---CCCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            33333   3357899999999999765432233222110011  2 3578899999999999999998744

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.83  E-value=4.3e-20  Score=141.06  Aligned_cols=124  Identities=18%  Similarity=0.196  Sum_probs=97.0

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-CCCC
Q 043946           41 KIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT----------DQESFNNVKQWLNEIDRYA-SENV  109 (198)
Q Consensus        41 ~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~  109 (198)
                      ....+.+.+  +.+.+||++|++.+...|..++++++++|||||++          +.+++.....|+..+.... ..+.
T Consensus       152 ~~~~~~~~~--v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~  229 (340)
T 4fid_A          152 HEYDFVVKD--IPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGA  229 (340)
T ss_dssp             EEEEEESSS--CEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTS
T ss_pred             EEEEEEeee--eeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCC
Confidence            334444444  78999999999999999999999999999999998          6778888888777665442 2578


Q ss_pred             cEEEEEeCCCCCCCC---------------cCCHHHHHHHHH-Hh--------------------------CCcEEEEec
Q 043946          110 NKLLVGNKCDLTDKK---------------VVSYETAKAFAD-EI--------------------------GIPFMETSA  147 (198)
Q Consensus       110 p~iiv~nK~D~~~~~---------------~~~~~~~~~~~~-~~--------------------------~~~~~~~S~  147 (198)
                      |+++++||+|+.+.+               ....+++.+++. ++                          .+.++++||
T Consensus       230 piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA  309 (340)
T 4fid_A          230 VKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNA  309 (340)
T ss_dssp             EEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECT
T ss_pred             eEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEe
Confidence            999999999985311               123555554433 22                          366899999


Q ss_pred             cCCCCHHHHHHHHHHHHHH
Q 043946          148 KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       148 ~~~~~i~~~~~~l~~~~~~  166 (198)
                      +++.+|+.+|..+.+.+.+
T Consensus       310 ~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          310 TDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             TCHHHHHHHHHHHHHHHHH
T ss_pred             eCcHHHHHHHHHHHHHHHH
Confidence            9999999999999999987

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.82  E-value=4.2e-22  Score=163.22  Aligned_cols=147  Identities=20%  Similarity=0.238  Sum_probs=79.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-------------------------------CCCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-------------------------------YLDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|++++|||||+++|+...                               ...+..++++.+.....+..+  .
T Consensus       177 ~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~--~  254 (592)
T 3mca_A          177 VVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD--K  254 (592)
T ss_dssp             EEEEEEECCSSSTHHHHHHHHHHHHHCC----------------------------------------------------
T ss_pred             ccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC--C
Confidence            5799999999999999999996310                               011112233333333334333  3


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChh---hH---HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE---SF---NNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~  124 (198)
                      ..+.||||||++.|.......+..+|++|+|+|++++.   .+   ......+..+..   .++| +|+|+||+|+.+..
T Consensus       255 ~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~---lgip~iIvviNKiDl~~~~  331 (592)
T 3mca_A          255 KIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA---LGISEIVVSVNKLDLMSWS  331 (592)
T ss_dssp             ----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH---SSCCCEEEEEECGGGGTTC
T ss_pred             eEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH---cCCCeEEEEEecccccccc
Confidence            78999999999999888888999999999999998532   11   011122222222   2455 89999999987532


Q ss_pred             cCCH----HHHHHHH-HHhCC-----cEEEEeccCCCCHH
Q 043946          125 VVSY----ETAKAFA-DEIGI-----PFMETSAKDSLNVE  154 (198)
Q Consensus       125 ~~~~----~~~~~~~-~~~~~-----~~~~~S~~~~~~i~  154 (198)
                      ....    +++..+. ...++     +++++||++|.|+.
T Consensus       332 ~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          332 EDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            1111    2233333 33344     69999999999998

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.82  E-value=1.8e-20  Score=134.94  Aligned_cols=155  Identities=15%  Similarity=0.183  Sum_probs=95.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc----------cccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER----------FRTITSSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~~~~   72 (198)
                      ..+|+++|++|||||||+++|.+..+.....++.+.+.....+.+++   .+.+||+||...          +......+
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~  102 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGEY  102 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHHH
Confidence            46899999999999999999997653333344444433333333333   478999999742          12222233


Q ss_pred             c---cCccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHHhC--CcEE
Q 043946           73 Y---RGAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADEIG--IPFM  143 (198)
Q Consensus        73 ~---~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~--~~~~  143 (198)
                      +   ..++++++++|+.++.+..  .+..|+   .   ..+.|+++++||+|+....+.  ..+.+..++...+  +.++
T Consensus       103 ~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~---~---~~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~  176 (210)
T 1pui_A          103 LEKRQSLQGLVVLMDIRHPLKDLDQQMIEWA---V---DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVE  176 (210)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCHHHHHHHHHH---H---HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEE
T ss_pred             HHhhhcccEEEEEEECCCCCchhHHHHHHHH---H---HcCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceE
Confidence            3   5789999999998865432  222222   1   136899999999998643211  1234444444443  4678


Q ss_pred             EEeccCCCCHHHHHHHHHHHHHH
Q 043946          144 ETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++|++++.|+++++++|.+.+.+
T Consensus       177 ~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          177 TFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             EEeecCCCCHHHHHHHHHHHHhh
Confidence            99999999999999999877643

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.82  E-value=5.6e-20  Score=157.36  Aligned_cols=158  Identities=17%  Similarity=0.157  Sum_probs=104.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCC-------CCC-------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDS-------YLD-------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI   68 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   68 (198)
                      .++|+++|++++|||||+++|.+..       +..       ......+.+.....+.+......+.+|||||++++...
T Consensus       296 ~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~  375 (1289)
T 3avx_A          296 HVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKN  375 (1289)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHHHH
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHH
Confidence            5899999999999999999997531       000       00111222222122223333368999999999999888


Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHhC-----
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEIG-----  139 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~-----  139 (198)
                      ....+..+|++|+|+|++++.... ...++..+...   ++| +++++||+|+.+....   ..+++..++..++     
T Consensus       376 mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~  451 (1289)
T 3avx_A          376 MITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDD  451 (1289)
T ss_dssp             HHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTT
T ss_pred             HHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccc
Confidence            888899999999999999853322 23344444333   578 7899999999753211   1245566666665     


Q ss_pred             CcEEEEeccCC--------CCHHHHHHHHHHHH
Q 043946          140 IPFMETSAKDS--------LNVEQAFMAMTADI  164 (198)
Q Consensus       140 ~~~~~~S~~~~--------~~i~~~~~~l~~~~  164 (198)
                      ++++++||++|        .|+.+++++|.+.+
T Consensus       452 vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          452 TPIVRGSALKALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             CCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             eeEEEEEeccCCCCCccccccchhhHhHHhhhc
Confidence            58999999999        35777777765543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.82  E-value=3e-19  Score=133.05  Aligned_cols=123  Identities=18%  Similarity=0.222  Sum_probs=85.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccccccccc------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR------   74 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~------   74 (198)
                      ..++|+++|.+|+|||||+++|.+.... ....+..+.......+..++  ..+.+|||||++++......+++      
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            3689999999999999999999986642 22223333344455566666  68999999998877554444432      


Q ss_pred             ---CccEEEEEEECCChhhHHHH-HHHHHHHHHhcCCC--CcEEEEEeCCCCCCCCcCC
Q 043946           75 ---GAHGIIIVYDVTDQESFNNV-KQWLNEIDRYASEN--VNKLLVGNKCDLTDKKVVS  127 (198)
Q Consensus        75 ---~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~--~p~iiv~nK~D~~~~~~~~  127 (198)
                         .+|++++|++++... +... ..|+..+......+  .|+++|+||+|+...+...
T Consensus       113 ~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~  170 (262)
T 3def_A          113 VNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELS  170 (262)
T ss_dssp             TTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCC
T ss_pred             hcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCcc
Confidence               789999999987644 3222 45666666554433  4999999999996443333

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.81  E-value=7.2e-19  Score=142.32  Aligned_cols=116  Identities=14%  Similarity=0.106  Sum_probs=79.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC--CCC--------------------CCcccceeeeEEEEEEECCeEEEEEEEeC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS--YLD--------------------SYISTIGVDFKIRTVEQDGKTVKLQIWDT   59 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~--~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   59 (198)
                      ...+|+|+|++|+|||||+++|+...  ...                    ......+.......+...+  +.+.+|||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~--~~i~liDT   89 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHD--CLVNLLDT   89 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETT--EEEEEECC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECC--eEEEEEEC
Confidence            46899999999999999999998531  100                    0011112222233444555  78999999


Q ss_pred             CCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           60 AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        60 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      ||+.++......++..+|++|+|+|++++.... ...++..   ....++|+++++||+|+...
T Consensus        90 PG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~---~~~~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           90 PGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEV---TRLRDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             CCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHH---HTTTTCCEEEEEECTTSCCS
T ss_pred             CCChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHH---HHHcCCCEEEEEcCcCCccc
Confidence            999998888888999999999999998854321 1222222   23347899999999998643

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.81  E-value=2e-19  Score=141.33  Aligned_cols=161  Identities=16%  Similarity=0.164  Sum_probs=110.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc----ccccc---ccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF----RTITS---SYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~---~~~~~~d   77 (198)
                      .|+|+|++|||||||+++|.+........+..+.......+..++ ...+.+||+||....    ..+..   ..+..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            478999999999999999987532111111112222233344443 246889999996321    11212   2245799


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946           78 GIIIVYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      .+++++|++ ..++..+..+...+..+..  ...|.++++||+|+...  ...+++.+.....+..++.+||+++.|+++
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~e  314 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPA  314 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHH
Confidence            999999998 5667777777777665432  25799999999998643  223444455555678999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 043946          156 AFMAMTADIKNRMA  169 (198)
Q Consensus       156 ~~~~l~~~~~~~~~  169 (198)
                      ++++|.+.+.+...
T Consensus       315 L~~~i~~~l~~~~~  328 (416)
T 1udx_A          315 LKEALHALVRSTPP  328 (416)
T ss_dssp             HHHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHhccc
Confidence            99999999876443

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.80  E-value=4.5e-19  Score=147.73  Aligned_cols=115  Identities=19%  Similarity=0.221  Sum_probs=82.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCC------C----------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYL------D----------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~------~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      +..+|+|+|.+|+|||||+++|+..  .+.      .          ......+.......+.+.+  +.+.+|||||+.
T Consensus        11 ~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~--~~i~liDTPG~~   88 (691)
T 1dar_A           11 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDTPGHV   88 (691)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETT--EEEEEECCCSST
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECC--eEEEEEECcCcc
Confidence            4689999999999999999999831  110      0          0011222223334445555  789999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      .+...+..++..+|++|+|+|+++..+......|.. +..   .+.|+++|+||+|+..
T Consensus        89 df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           89 DFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             TCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             chHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            988888999999999999999998777665555543 322   3789999999999864

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.80  E-value=2.1e-19  Score=149.20  Aligned_cols=113  Identities=14%  Similarity=0.181  Sum_probs=80.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCC------------------cccceeeeEEEEEEECCeEEEEEEEeCCCccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSY------------------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   64 (198)
                      ..+|+|+|+.|+|||||+++|++.......                  ....+.......+....  +.+++|||||+..
T Consensus         9 ~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~--~~~nliDTpG~~~   86 (665)
T 2dy1_A            9 IRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGD   86 (665)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGG
T ss_pred             CcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCC--EEEEEEeCCCccc
Confidence            468999999999999999999842211000                  01222223334444444  7899999999999


Q ss_pred             ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           65 FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        65 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +......++..+|++++|+|+.+...... ..++..+..   .+.|+++++||+|+.
T Consensus        87 f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           87 FVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             hHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            98888899999999999999887544322 233333433   368999999999986

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.80  E-value=5.3e-19  Score=147.40  Aligned_cols=162  Identities=17%  Similarity=0.238  Sum_probs=105.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCccccee------------ee----------------------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGV------------DF----------------------------   40 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~------------~~----------------------------   40 (198)
                      ..++|+|+|.+|+|||||+|+|++....+ ...+++..            +.                            
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            35899999999999999999999876433 22232210            00                            


Q ss_pred             -------------EEEEEEECCeE--EEEEEEeCCCccc---ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHH
Q 043946           41 -------------KIRTVEQDGKT--VKLQIWDTAGQER---FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEID  102 (198)
Q Consensus        41 -------------~~~~~~~~~~~--~~~~i~D~~g~~~---~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  102 (198)
                                   ....+..+...  ..+.+|||||...   .......++..+|++|||+|++++.+......|...+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~  227 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIK  227 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHH
Confidence                         00001111100  2489999999654   33456678899999999999998777666655554442


Q ss_pred             HhcCCCCcEEEEEeCCCCCCCCcCCH---H-------HHHHH----H-HH--------hCCcEEEEecc-----------
Q 043946          103 RYASENVNKLLVGNKCDLTDKKVVSY---E-------TAKAF----A-DE--------IGIPFMETSAK-----------  148 (198)
Q Consensus       103 ~~~~~~~p~iiv~nK~D~~~~~~~~~---~-------~~~~~----~-~~--------~~~~~~~~S~~-----------  148 (198)
                      .   .+.|+++|+||+|+........   +       .+...    . ..        ...+++++||+           
T Consensus       228 ~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~  304 (695)
T 2j69_A          228 G---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQ  304 (695)
T ss_dssp             T---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTT
T ss_pred             h---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCch
Confidence            2   3678999999999864421111   1       12111    1 11        12368999999           


Q ss_pred             ---CCCCHHHHHHHHHHHHHH
Q 043946          149 ---DSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       149 ---~~~~i~~~~~~l~~~~~~  166 (198)
                         ++.|+++++++|.+.+..
T Consensus       305 ~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          305 ADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             CCCTTSSHHHHHHHHHHHHHH
T ss_pred             hhhhccCHHHHHHHHHHHHHH
Confidence               999999999999887754

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.79  E-value=4.8e-20  Score=143.25  Aligned_cols=158  Identities=16%  Similarity=0.213  Sum_probs=104.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceee---e---------------------------------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVD---F---------------------------------------   40 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~---~---------------------------------------   40 (198)
                      ..+|+|+|.+|||||||+|+|.+..+.+......+..   .                                       
T Consensus        34 lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~  113 (360)
T 3t34_A           34 LPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETDR  113 (360)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHHH
Confidence            4589999999999999999999876533222211100   0                                       


Q ss_pred             ------------EEEEEEECCeEEEEEEEeCCCcccc-------------cccccccccCccEEEEEEECCChhhHHHHH
Q 043946           41 ------------KIRTVEQDGKTVKLQIWDTAGQERF-------------RTITSSYYRGAHGIIIVYDVTDQESFNNVK   95 (198)
Q Consensus        41 ------------~~~~~~~~~~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~   95 (198)
                                  ....+... ....+.+||+||...+             ..+...++..+|++|+|+|..+.+...  .
T Consensus       114 ~~g~~~~~s~~~i~l~i~~~-~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~  190 (360)
T 3t34_A          114 ETGRSKAISSVPIHLSIYSP-NVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--S  190 (360)
T ss_dssp             TSCTTCCCCCSCEEEEEEET-TSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--C
T ss_pred             hcCCCCCcccceEEEEEeCC-CCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--H
Confidence                        00001111 1135899999997765             445667889999999999876533211  3


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           96 QWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        96 ~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      .|+..+......+.|+++|+||+|+........+.+.......+.+|++++++++.++++.+.++...
T Consensus       191 ~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~  258 (360)
T 3t34_A          191 DAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAAR  258 (360)
T ss_dssp             HHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHH
Confidence            44555555555678999999999997655444444444444556789999999998888776654433

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.79  E-value=1.3e-19  Score=141.97  Aligned_cols=85  Identities=19%  Similarity=0.189  Sum_probs=48.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceee--eEEEEEE-------------------ECC-eEEEEEEEeCCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVD--FKIRTVE-------------------QDG-KTVKLQIWDTAG   61 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~--~~~~~~~-------------------~~~-~~~~~~i~D~~g   61 (198)
                      ++|+++|.+|||||||+|+|.+........+..+.+  .....+.                   +.+ ....+.+||+||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            589999999999999999999865322222222221  2211111                   122 246899999999


Q ss_pred             cccc----c---ccccccccCccEEEEEEECCCh
Q 043946           62 QERF----R---TITSSYYRGAHGIIIVYDVTDQ   88 (198)
Q Consensus        62 ~~~~----~---~~~~~~~~~~d~~i~v~d~~~~   88 (198)
                      ....    .   ......++.+|++++|+|+.+.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            7531    1   2223457899999999999875

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.79  E-value=4.6e-18  Score=127.14  Aligned_cols=121  Identities=17%  Similarity=0.186  Sum_probs=80.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccccc-------c--
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITS-------S--   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~-------~--   71 (198)
                      ..++|+++|.+|+|||||+|+|++..+.. ...+..+.......+...+  ..+.+|||||..++.....       .  
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            36899999999999999999999866421 2222222233333444455  7899999999876543222       1  


Q ss_pred             cccCccEEEEEEECCChhhHHH-HHHHHHHHHHhcCCC--CcEEEEEeCCCCCCCCc
Q 043946           72 YYRGAHGIIIVYDVTDQESFNN-VKQWLNEIDRYASEN--VNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~--~p~iiv~nK~D~~~~~~  125 (198)
                      ....+|+++||+|++.. ++.. -..|+..+......+  .|+++|+||+|+...+.
T Consensus       116 ~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~  171 (270)
T 1h65_A          116 LDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDG  171 (270)
T ss_dssp             TTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGG
T ss_pred             hcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCC
Confidence            13479999999998753 2322 235666665554433  69999999999965443

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.79  E-value=3.6e-19  Score=135.85  Aligned_cols=112  Identities=19%  Similarity=0.250  Sum_probs=69.8

Q ss_pred             EEEEEEeCCCccc-------------ccccccccccCccEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCcEEEEEeC
Q 043946           52 VKLQIWDTAGQER-------------FRTITSSYYRGAHGIIIVYDVTDQESF-NNVKQWLNEIDRYASENVNKLLVGNK  117 (198)
Q Consensus        52 ~~~~i~D~~g~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~iiv~nK  117 (198)
                      ..+.+|||||...             +......++..+|++++|+|+.+.... .....+   +......+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i---~~~~~~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQL---AKEVDPEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHH---HHHHCSSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHH---HHHhCCCCCcEEEEEcC
Confidence            4699999999653             344566688999999999997432210 111122   22223347899999999


Q ss_pred             CCCCCCCcCCHHHHHHHHHHhCCcEEEEec---cC---CCCHHHHHHHHHHHHHH
Q 043946          118 CDLTDKKVVSYETAKAFADEIGIPFMETSA---KD---SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       118 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~---~~---~~~i~~~~~~l~~~~~~  166 (198)
                      +|+........+.+.......+..++++|+   .+   +.|+.++++.+.+.+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            999765432233332111112255666654   44   78899999998877754

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.78  E-value=4.1e-20  Score=140.13  Aligned_cols=164  Identities=22%  Similarity=0.309  Sum_probs=88.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC-CCCCCCc--------ccceeeeEEEEEEECCeEEEEEEEeCCCc-------ccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD-SYLDSYI--------STIGVDFKIRTVEQDGKTVKLQIWDTAGQ-------ERF   65 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~-~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~~~   65 (198)
                      ..++|+|+|++|||||||+++|.+. .++....        ++.........+...+....+.+||++|.       +.+
T Consensus        17 ~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~   96 (301)
T 2qnr_A           17 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF   96 (301)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------C
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHH
Confidence            4689999999999999999998764 3332221        11111111122223344468999999997       433


Q ss_pred             ccccc-------cccc-------------CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           66 RTITS-------SYYR-------------GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        66 ~~~~~-------~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+..       .++.             .+++++|+.+++.. +++.+.  ...+.... .+.|+++|+||.|+...++
T Consensus        97 ~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~--~~~l~~l~-~~~~iilV~~K~Dl~~~~e  172 (301)
T 2qnr_A           97 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLD--VAFMKAIH-NKVNIVPVIAKADTLTLKE  172 (301)
T ss_dssp             TTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHH--HHHHHHHT-TTSCEEEEECCGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHH--HHHHHHHH-hcCCEEEEEEeCCCCCHHH
Confidence            33332       2222             23446666654321 122222  12333333 3579999999999875433


Q ss_pred             C--CHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          126 V--SYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       126 ~--~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      +  ..+++.+++..++++++++||+++ +++++|.++.+.+.+..+.
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p~  218 (301)
T 2qnr_A          173 RERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIPF  218 (301)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCSE
T ss_pred             HHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCCc
Confidence            2  245677888899999999999999 9999999999998765543

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.78  E-value=4.4e-18  Score=141.88  Aligned_cols=115  Identities=17%  Similarity=0.169  Sum_probs=83.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCCC----------------CcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLDS----------------YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      +..+|+|+|.+|+|||||+++|+.  ..+...                ..+..+.......+.+.+  +.+.+|||||+.
T Consensus         9 ~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~liDTPG~~   86 (693)
T 2xex_A            9 KTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNIIDTPGHV   86 (693)
T ss_dssp             TEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEECCCCCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEEECcCCc
Confidence            468999999999999999999984  222100                011222222334455555  789999999999


Q ss_pred             cccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           64 RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        64 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ++...+..++..+|++|+|+|++++.+......|.. +..   .+.|+++|+||+|+..
T Consensus        87 df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           87 DFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             SCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             chHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            988888889999999999999998766655555543 333   3689999999999864

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.77  E-value=1.1e-17  Score=139.66  Aligned_cols=117  Identities=16%  Similarity=0.128  Sum_probs=81.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC--CCCCC-----------C-----cccceeeeEEEEEEEC-----CeEEEEEEEe
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD--SYLDS-----------Y-----ISTIGVDFKIRTVEQD-----GKTVKLQIWD   58 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~--~~~~~-----------~-----~~~~~~~~~~~~~~~~-----~~~~~~~i~D   58 (198)
                      +..+|+|+|..|+|||||+++|+..  .+...           .     ....+.......+.+.     +..+.+.|||
T Consensus         9 ~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~liD   88 (704)
T 2rdo_7            9 RYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIID   88 (704)
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEEe
Confidence            4679999999999999999999742  11110           0     1112222222333333     2337899999


Q ss_pred             CCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           59 TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        59 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      |||+.+|...+..++..+|++|+|+|+++.........|.. +.   ..+.|+++++||+|+..
T Consensus        89 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~---~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           89 TPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-AN---KYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             CCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HH---HcCCCEEEEEeCCCccc
Confidence            99999988888899999999999999998755444433432 22   23789999999999864

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.77  E-value=2.8e-18  Score=132.75  Aligned_cols=127  Identities=17%  Similarity=0.180  Sum_probs=95.1

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCC
Q 043946           41 KIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTD----------QESFNNVKQWLNEIDRYA-SENV  109 (198)
Q Consensus        41 ~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~  109 (198)
                      ....+.+++  +.+.+||++|++.+...|..++++++++|||+|+++          .+++.....|+..+.... ..+.
T Consensus       192 ~~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~  269 (362)
T 1zcb_A          192 HEYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNV  269 (362)
T ss_dssp             EEEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTS
T ss_pred             EEEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCC
Confidence            345566665  889999999999999999999999999999999999          678888888887775532 2578


Q ss_pred             cEEEEEeCCCCCCCC----------------cCCHHHHHHHHH-----------HhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946          110 NKLLVGNKCDLTDKK----------------VVSYETAKAFAD-----------EIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       110 p~iiv~nK~D~~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      |+++++||+|+.+..                .+..+++..++.           ..++.++++||+++.||+++|+++.+
T Consensus       270 piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~  349 (362)
T 1zcb_A          270 SIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKD  349 (362)
T ss_dssp             EEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHH
T ss_pred             CEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHH
Confidence            999999999985321                256677776652           34567899999999999999999999


Q ss_pred             HHHHhhh
Q 043946          163 DIKNRMA  169 (198)
Q Consensus       163 ~~~~~~~  169 (198)
                      .+.+...
T Consensus       350 ~i~~~~l  356 (362)
T 1zcb_A          350 TILHDNL  356 (362)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9876543

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.76  E-value=1.8e-18  Score=135.90  Aligned_cols=158  Identities=17%  Similarity=0.227  Sum_probs=79.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC--------cccceeeeEEEEEEECCeEEEEEEEeCCCccccc-------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY--------ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-------   66 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------   66 (198)
                      ..++|+|+|++|||||||++.|.+.......        .++.........+...+....+.+||++|.....       
T Consensus        30 vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~  109 (418)
T 2qag_C           30 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ  109 (418)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CH
T ss_pred             CCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHH
Confidence            4678999999999999999999976542111        1111111111112223333578999999975431       


Q ss_pred             c------------------cccccccCccEEEEEEECCCh-hhHHHHH-HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           67 T------------------ITSSYYRGAHGIIIVYDVTDQ-ESFNNVK-QWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        67 ~------------------~~~~~~~~~d~~i~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                      .                  +...++.++++.+++|+.... .++.... .|+..+.    .+.|+|+|+||+|+...+.+
T Consensus       110 ~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~ev  185 (418)
T 2qag_C          110 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPEEC  185 (418)
T ss_dssp             HHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHHHH
Confidence            1                  123345555544444444332 2333222 4554442    36899999999998754444


Q ss_pred             CH--HHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946          127 SY--ETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       127 ~~--~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      ..  +.+.+.+..++++++++|+.++.+++++|..|.+.
T Consensus       186 ~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          186 QQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             HHHHHHHHHHHHHHTCCCCCCC-----------------
T ss_pred             HHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence            33  56777788889999999999999999887776654

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.75  E-value=4.5e-18  Score=131.12  Aligned_cols=128  Identities=20%  Similarity=0.266  Sum_probs=97.1

Q ss_pred             EEEEEECC----eEEEEEEEeCCCcccccccccccccCccEEEEEEECC----------ChhhHHHHHHHHHHHHHhc-C
Q 043946           42 IRTVEQDG----KTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVT----------DQESFNNVKQWLNEIDRYA-S  106 (198)
Q Consensus        42 ~~~~~~~~----~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~  106 (198)
                      ...+.+++    ..+.+.+||++|++.+...|..++++++++|||||++          +.+++.....|+..+.... .
T Consensus       169 e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~  248 (354)
T 2xtz_A          169 EIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCF  248 (354)
T ss_dssp             EEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGG
T ss_pred             eEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhcccc
Confidence            33444554    5689999999999999999999999999999999998          7788988888887776542 2


Q ss_pred             CCCcEEEEEeCCCCCCCCc--C-------------------CHHHHHHHHHH----------------hCCcEEEEeccC
Q 043946          107 ENVNKLLVGNKCDLTDKKV--V-------------------SYETAKAFADE----------------IGIPFMETSAKD  149 (198)
Q Consensus       107 ~~~p~iiv~nK~D~~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~S~~~  149 (198)
                      .+.|+++|+||+|+.+.+.  +                   ..+++.+++..                ..+.++++||++
T Consensus       249 ~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d  328 (354)
T 2xtz_A          249 EKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALD  328 (354)
T ss_dssp             SSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTC
T ss_pred             CCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeec
Confidence            5789999999999853211  1                   13555555432                123468999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhh
Q 043946          150 SLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~~~  169 (198)
                      +.||+++|+++.+.+.+...
T Consensus       329 ~~nV~~vF~~v~~~I~~~~l  348 (354)
T 2xtz_A          329 QKLVKKTFKLVDETLRRRNL  348 (354)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHHHH
Confidence            99999999999998876544

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.75  E-value=2.5e-17  Score=133.87  Aligned_cols=114  Identities=15%  Similarity=0.087  Sum_probs=83.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCC----------------------CCCCCcccceeeeEEEEEEECCeEEEEEEEeCCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDS----------------------YLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG   61 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   61 (198)
                      =+|+|+|+.++|||||..+|+...                      ...+....+++......+.+.+  +.++|+||||
T Consensus        32 RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlIDTPG  109 (548)
T 3vqt_A           32 RTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLLDTPG  109 (548)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEECCCC
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEEeCCC
Confidence            379999999999999999995210                      1122334455555666777777  7899999999


Q ss_pred             cccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           62 QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      +.+|.....+.++.+|++|+|+|+...-.......|.. +..   .++|.++++||+|....
T Consensus       110 HvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~-a~~---~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          110 HQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDV-CRM---RATPVMTFVNKMDREAL  167 (548)
T ss_dssp             GGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSCCC
T ss_pred             cHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHH-HHH---hCCceEEEEecccchhc
Confidence            99999999999999999999999998655444444433 333   37999999999998643

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.75  E-value=7.5e-19  Score=133.25  Aligned_cols=133  Identities=19%  Similarity=0.230  Sum_probs=106.6

Q ss_pred             HHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChh-hHHHHH
Q 043946           18 CLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQE-SFNNVK   95 (198)
Q Consensus        18 tli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~   95 (198)
                      +|+.++..+.+. ..+.++++..+. ..+..++   .+.+||+  ++.+..++..++.++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            577778877777 778888884443 3322222   6899999  8889999999999999999999999987 688888


Q ss_pred             HHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccCCCCHHHHHHHHH
Q 043946           96 QWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        96 ~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      .|+..+..   .++|+++|+||+|+.+.+.+  +++.+++..++  ++++++||++|.|++++|+++.
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~  168 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLK  168 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhc
Confidence            89887654   36899999999999654322  45667777777  8999999999999999999874

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.74  E-value=1.5e-17  Score=129.66  Aligned_cols=127  Identities=20%  Similarity=0.166  Sum_probs=100.4

Q ss_pred             EEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEECCC----------hhhHHHHHHHHHHHHHhc-CCCC
Q 043946           41 KIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTD----------QESFNNVKQWLNEIDRYA-SENV  109 (198)
Q Consensus        41 ~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~  109 (198)
                      ....+.+++  +.+.+||++|++.+...|..++++++++|||||+++          .+++..+..|+..+.... ..+.
T Consensus       208 ~~~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~  285 (402)
T 1azs_C          208 FETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTI  285 (402)
T ss_dssp             EEEEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSC
T ss_pred             EEEEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCC
Confidence            335566666  889999999999999999999999999999999999          889999999998876642 3578


Q ss_pred             cEEEEEeCCCCCCCCc---C---------------------------CHHHHHHHH-----HH--------hCCcEEEEe
Q 043946          110 NKLLVGNKCDLTDKKV---V---------------------------SYETAKAFA-----DE--------IGIPFMETS  146 (198)
Q Consensus       110 p~iiv~nK~D~~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~S  146 (198)
                      |+++|+||+|+...+.   +                           ..+++..++     ..        ..+.++++|
T Consensus       286 piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TS  365 (402)
T 1azs_C          286 SVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTC  365 (402)
T ss_dssp             CEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECC
T ss_pred             eEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEE
Confidence            9999999999853221   1                           134455443     22        235678999


Q ss_pred             ccCCCCHHHHHHHHHHHHHHhhh
Q 043946          147 AKDSLNVEQAFMAMTADIKNRMA  169 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~~~~  169 (198)
                      |+++.||+++|.++.+.+.+...
T Consensus       366 A~d~~nV~~vF~~v~~~I~~~~l  388 (402)
T 1azs_C          366 AVDTENIRRVFNDCRDIIQRMHL  388 (402)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecCcCHHHHHHHHHHHHHHHHH
Confidence            99999999999999988876543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.73  E-value=3.9e-18  Score=123.72  Aligned_cols=154  Identities=19%  Similarity=0.209  Sum_probs=94.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeee--------------EEEEEEECC----------------eEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDF--------------KIRTVEQDG----------------KTV   52 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~--------------~~~~~~~~~----------------~~~   52 (198)
                      ..+|+++|.+|||||||+++|+..............+.              ....+..++                ...
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSDC  109 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTTC
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCCC
Confidence            46899999999999999999986421111111111000              111111110                124


Q ss_pred             EEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHH
Q 043946           53 KLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAK  132 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~  132 (198)
                      .+.+||++|.-....   .+....+.+++|+|+......  ...+...   .   +.|+++|+||+|+........+++.
T Consensus       110 d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~~~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~~~~  178 (221)
T 2wsm_A          110 DLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--VEKHPEI---F---RVADLIVINKVALAEAVGADVEKMK  178 (221)
T ss_dssp             SEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--HHHCHHH---H---HTCSEEEEECGGGHHHHTCCHHHHH
T ss_pred             CEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--hhhhhhh---h---hcCCEEEEecccCCcchhhHHHHHH
Confidence            678999988411111   111256889999998765321  1111111   1   4688999999998643333566666


Q ss_pred             HHHHHh--CCcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          133 AFADEI--GIPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       133 ~~~~~~--~~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ..+...  +++++++|+++|.|++++|++|.+.+...
T Consensus       179 ~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          179 ADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            666654  36899999999999999999999887553

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.72  E-value=1.1e-16  Score=123.23  Aligned_cols=147  Identities=14%  Similarity=0.123  Sum_probs=91.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccccc-
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQERFR-   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~-   66 (198)
                      .++|+++|.+|||||||+|+|.+........+..+.+.....+.+++.               +..+.+||+||..... 
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~   81 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCccccc
Confidence            478999999999999999999986543222232222222223334432               1479999999976532 


Q ss_pred             ---cc---ccccccCccEEEEEEECCCh----------hhHHHHHHHHHHH-----------------------------
Q 043946           67 ---TI---TSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEI-----------------------------  101 (198)
Q Consensus        67 ---~~---~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~-----------------------------  101 (198)
                         .+   ....++.+|++++|+|+++.          +++..+..+..++                             
T Consensus        82 ~~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~  161 (363)
T 1jal_A           82 KGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFE  161 (363)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHH
Confidence               22   23357899999999999862          2333332211111                             


Q ss_pred             -----------H-------------------Hh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC
Q 043946          102 -----------D-------------------RY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus       102 -----------~-------------------~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                                 .                   .+ ....+|+++++|+.|.........+.+..++...+++++++||+.
T Consensus       162 ~~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          162 LSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence                       1                   01 112489999999999642212235677788888899999999763

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.70  E-value=1e-17  Score=129.78  Aligned_cols=104  Identities=13%  Similarity=0.139  Sum_probs=69.7

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YE  129 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~  129 (198)
                      +.+.||||||...   .....+..+|++++|+|+...+.+..+..        .-.+.|+++|+||+|+.+.....  .+
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~--------~~~~~p~ivVlNK~Dl~~~~~~~~~~~  240 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKK--------GVLELADIVVVNKADGEHHKEARLAAR  240 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCT--------TSGGGCSEEEEECCCGGGHHHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHH--------hHhhcCCEEEEECCCCcChhHHHHHHH
Confidence            5789999999432   23334588999999999876544321111        01236899999999986432111  11


Q ss_pred             HHHHHHHHh-------CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          130 TAKAFADEI-------GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       130 ~~~~~~~~~-------~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++.......       +.+++++||++|.|+++++++|.+.+..
T Consensus       241 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          241 ELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            222222212       4789999999999999999999988765

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.68  E-value=9e-18  Score=130.09  Aligned_cols=156  Identities=19%  Similarity=0.202  Sum_probs=91.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCC------cccce--------------------eee----------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSY------ISTIG--------------------VDF----------------   40 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~------~~~~~--------------------~~~----------------   40 (198)
                      .++|+|+|.+|||||||+|+|++..+.+..      .|+..                    .+.                
T Consensus        31 ~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~g  110 (353)
T 2x2e_A           31 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  110 (353)
T ss_dssp             CCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhcc
Confidence            468999999999999999999987653221      11100                    000                


Q ss_pred             ---------EEEEEEECCeEEEEEEEeCCCccc-------------ccccccccccCcc-EEEEEEECCChhhHHHHHHH
Q 043946           41 ---------KIRTVEQDGKTVKLQIWDTAGQER-------------FRTITSSYYRGAH-GIIIVYDVTDQESFNNVKQW   97 (198)
Q Consensus        41 ---------~~~~~~~~~~~~~~~i~D~~g~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~   97 (198)
                               ....+... ....+.+|||||...             +..+...++...+ ++++|+|++....-.   .+
T Consensus       111 ~~~gi~~~~~~~~i~~~-~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~---~~  186 (353)
T 2x2e_A          111 TNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANS---DA  186 (353)
T ss_dssp             TTTCCCCCCEEEEEEET-TCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGC---HH
T ss_pred             cCCCcccCceEEEEecC-CCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchh---HH
Confidence                     00011111 125699999999532             2334555665555 555566665422211   12


Q ss_pred             HHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH--HhC-CcEEEEeccCCCCHHHHHHHHHH
Q 043946           98 LNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD--EIG-IPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        98 ~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~--~~~-~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      ...+......+.|+++|+||+|+.+......+.+.....  ..+ ..++++||+++.|++++++++.+
T Consensus       187 ~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          187 LKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            223444444578999999999997543322222111000  112 24678999999999999999876

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.67  E-value=8.2e-18  Score=122.39  Aligned_cols=154  Identities=20%  Similarity=0.249  Sum_probs=92.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeE------------EEEEEEC-CeE-----------------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFK------------IRTVEQD-GKT-----------------   51 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~-~~~-----------------   51 (198)
                      ..++|+|+|.+|||||||+++|+...+...+.++...++.            ...+.++ +..                 
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            3589999999999999999999876444333343332221            1111111 100                 


Q ss_pred             --EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHH
Q 043946           52 --VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYE  129 (198)
Q Consensus        52 --~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~  129 (198)
                        ..+.++|++|.-..   ...+-...+..+.++|+.......  ......+      +.|.++|+||+|+.+......+
T Consensus       117 ~~~d~~~id~~g~i~~---~~s~~~~~~~~~~v~~~~~~~~~~--~~~~~~~------~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLIC---PADFDLGTHKRIVVISTTEGDDTI--EKHPGIM------KTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSG---GGGCCCSCSEEEEEEEGGGCTTTT--TTCHHHH------TTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccC---cchhhhccCcEEEEEecCcchhhH--hhhhhHh------hcCCEEEEeccccCchhHHHHH
Confidence              13455566552100   011112345566777753221100  0001111      4688999999998654334566


Q ss_pred             HHHHHHHHh--CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          130 TAKAFADEI--GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       130 ~~~~~~~~~--~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ++..++...  +++++++||++|.|++++|++|.+.+.+
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            777776665  5789999999999999999999887764

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.66  E-value=1.5e-16  Score=135.12  Aligned_cols=116  Identities=18%  Similarity=0.231  Sum_probs=83.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCC--CCC--------------CCcccceee--eEEEEEE------------ECCeE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDS--YLD--------------SYISTIGVD--FKIRTVE------------QDGKT   51 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~--~~~--------------~~~~~~~~~--~~~~~~~------------~~~~~   51 (198)
                      +..+|+|+|+.++|||||+++|+...  ...              +..+..+..  .....+.            .++..
T Consensus        18 ~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~   97 (842)
T 1n0u_A           18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   97 (842)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCC
Confidence            46799999999999999999998531  100              011111211  2222222            13346


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +.+.||||||+.+|...+..+++.+|++|+|+|+.++.++.....|....    ..+.|+++++||+|+.
T Consensus        98 ~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~----~~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           98 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL----GERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH----HTTCEEEEEEECHHHH
T ss_pred             ceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH----HcCCCeEEEEECCCcc
Confidence            89999999999999999999999999999999999987776665555433    2368999999999986

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.65  E-value=4.6e-16  Score=120.47  Aligned_cols=154  Identities=16%  Similarity=0.136  Sum_probs=92.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC-------------------eEEEEEEEeCCCccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG-------------------KTVKLQIWDTAGQER   64 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~g~~~   64 (198)
                      ++|+++|.+|||||||+|+|.+........+..+.........++.                   ....+.+||+||...
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            5899999999999999999986532212122111111111222221                   235799999999765


Q ss_pred             cc-------ccccccccCccEEEEEEECCCh----------hhHHHHHHHHHHH--------------------------
Q 043946           65 FR-------TITSSYYRGAHGIIIVYDVTDQ----------ESFNNVKQWLNEI--------------------------  101 (198)
Q Consensus        65 ~~-------~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~--------------------------  101 (198)
                      ..       ......++.+|++++|+|+.+.          +++..+..+..++                          
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~~~  161 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERL  161 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGH
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchhHH
Confidence            32       1223357899999999999852          2222221111100                          


Q ss_pred             -------------HH-------------------hc-CCCCcEEEEEeCCCCC--CC-CcCCHHHHHHHHHHhCCcEEEE
Q 043946          102 -------------DR-------------------YA-SENVNKLLVGNKCDLT--DK-KVVSYETAKAFADEIGIPFMET  145 (198)
Q Consensus       102 -------------~~-------------------~~-~~~~p~iiv~nK~D~~--~~-~~~~~~~~~~~~~~~~~~~~~~  145 (198)
                                   ..                   +. ...+|+++++||.|..  +. .....+.++.+++..+++++++
T Consensus       162 ~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~i  241 (368)
T 2dby_A          162 PLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVV  241 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEe
Confidence                         00                   00 1137999999999842  21 1233567788888889999999


Q ss_pred             eccCCCCHHHHH
Q 043946          146 SAKDSLNVEQAF  157 (198)
Q Consensus       146 S~~~~~~i~~~~  157 (198)
                      ||+...++.++.
T Consensus       242 SAk~E~el~eL~  253 (368)
T 2dby_A          242 SARLEAELAELS  253 (368)
T ss_dssp             CHHHHHHHHTSC
T ss_pred             echhHHHHHHhc
Confidence            998865555443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.64  E-value=4.4e-15  Score=115.03  Aligned_cols=151  Identities=15%  Similarity=0.107  Sum_probs=103.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------cccccccccCc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------RTITSSYYRGA   76 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------~~~~~~~~~~~   76 (198)
                      .+|+++|.||||||||+|+|.+........+..+.+.....+.+++  .+++++|+||.-.-       .......++.+
T Consensus        73 a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~a  150 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVARTC  150 (376)
T ss_dssp             EEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHHHhc
Confidence            5899999999999999999998665445556667777777788888  67899999995321       11223456789


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHh--cCCCCcEEEEEeCCCCCC--------CCcCCHHHHHHHHHHhCCcEEEEe
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRY--ASENVNKLLVGNKCDLTD--------KKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~--~~~~~p~iiv~nK~D~~~--------~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      |++++|+|++++..  ........+...  .....|.++++||.|...        ......++++.+...+.+.--++-
T Consensus       151 d~il~vvD~~~p~~--~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~  228 (376)
T 4a9a_A          151 NLLFIILDVNKPLH--HKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIA  228 (376)
T ss_dssp             SEEEEEEETTSHHH--HHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEE
T ss_pred             CccccccccCccHH--HHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCee
Confidence            99999999998743  222222333322  123578899999999742        123456777777777766545555


Q ss_pred             ccCCCCHHHHHH
Q 043946          147 AKDSLNVEQAFM  158 (198)
Q Consensus       147 ~~~~~~i~~~~~  158 (198)
                      ...+...+++.+
T Consensus       229 ~~~nv~eddl~d  240 (376)
T 4a9a_A          229 FRCDATVDDLID  240 (376)
T ss_dssp             ECSCCCHHHHHH
T ss_pred             ecccCCHHHHHH
Confidence            555666666554

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.64  E-value=2.5e-16  Score=128.10  Aligned_cols=119  Identities=15%  Similarity=0.183  Sum_probs=77.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC---CCCcccceeeeEEEE----------------------E-----------
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL---DSYISTIGVDFKIRT----------------------V-----------   45 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~~~~~----------------------~-----------   45 (198)
                      ..++|+|+|.+|+|||||+|+|++..+.   ....+++........                      +           
T Consensus        64 ~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~~  143 (550)
T 2qpt_A           64 GKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNRF  143 (550)
T ss_dssp             SCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCTTE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhcccccccc
Confidence            3579999999999999999999987653   222222211000000                      0           


Q ss_pred             ---EECCe-EEEEEEEeCCCccc-----------ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc
Q 043946           46 ---EQDGK-TVKLQIWDTAGQER-----------FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN  110 (198)
Q Consensus        46 ---~~~~~-~~~~~i~D~~g~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p  110 (198)
                         .+++. ...+.+|||||...           +......++..+|++|+|+|+++.........++..+.   ..+.|
T Consensus       144 ~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~---~~~~p  220 (550)
T 2qpt_A          144 MCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALR---GHEDK  220 (550)
T ss_dssp             EEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTT---TCGGG
T ss_pred             eEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHH---hcCCC
Confidence               00000 02589999999764           33455567888999999999987543344455554443   33689


Q ss_pred             EEEEEeCCCCCCC
Q 043946          111 KLLVGNKCDLTDK  123 (198)
Q Consensus       111 ~iiv~nK~D~~~~  123 (198)
                      +++|+||+|+...
T Consensus       221 vilVlNK~Dl~~~  233 (550)
T 2qpt_A          221 IRVVLNKADMVET  233 (550)
T ss_dssp             EEEEEECGGGSCH
T ss_pred             EEEEEECCCccCH
Confidence            9999999998653

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.63  E-value=5.5e-17  Score=134.20  Aligned_cols=113  Identities=15%  Similarity=0.195  Sum_probs=81.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc--CCCCC----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD--DSYLD----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~--~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      -+|+|+|+.++|||||..+|+.  +....                +....+++......+.+.+  +.++|+||||+.+|
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlIDTPGH~DF   80 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN--TKVNIIDTPGHMDF   80 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSS--CBCCCEECCCSSST
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECC--EEEEEEECCCcHHH
Confidence            3689999999999999999962  21111                0011233333444455555  78999999999999


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      .......++.+|++|+|+|+...-.......|.. +...   ++|.++++||+|...
T Consensus        81 ~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~-a~~~---~lp~i~~INKmDr~~  133 (638)
T 3j25_A           81 LAEVYRSLSVLDGAILLISAKDGVQAQTRILFHA-LRKM---GIPTIFFINKIDQNG  133 (638)
T ss_dssp             HHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHH-HHHH---TCSCEECCEECCSSS
T ss_pred             HHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHH-HHHc---CCCeEEEEecccccc
Confidence            9999999999999999999998644333333333 3333   689999999999864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.62  E-value=4.3e-15  Score=114.72  Aligned_cols=103  Identities=10%  Similarity=0.070  Sum_probs=62.9

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.++||+|....   .......+|++++|+|++.+.....+..   .+     ...|.++|+||+|+.+.... ....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~-~~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPA-RRIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHH-HHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhH-HHHH
Confidence            56899999995321   2334678999999999987543221111   11     14688999999998532110 0112


Q ss_pred             HHHHH----------HhCCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          132 KAFAD----------EIGIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       132 ~~~~~----------~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ..+..          .+..+++.+|+++|.|+++++++|.+.+..
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            22221          124578999999999999999999887643

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.61  E-value=1e-14  Score=122.17  Aligned_cols=115  Identities=17%  Similarity=0.154  Sum_probs=79.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC--------CC----------CCCCcccceeeeEEEEEEECC-----eEEEEEEEeCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD--------SY----------LDSYISTIGVDFKIRTVEQDG-----KTVKLQIWDTA   60 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~--------~~----------~~~~~~~~~~~~~~~~~~~~~-----~~~~~~i~D~~   60 (198)
                      =+|+|+|+.++|||||..+|+..        +.          ..+....+++.....++.+.+     ..+.++|+|||
T Consensus        14 RNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTP   93 (709)
T 4fn5_A           14 RNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTP   93 (709)
T ss_dssp             EEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEECCC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCC
Confidence            37999999999999999998621        11          112223334444445555532     35889999999


Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      |+.+|.......++.+|++|+|+|+...-......-|......    ++|.++++||+|...
T Consensus        94 GHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~~  151 (709)
T 4fn5_A           94 GHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQG  151 (709)
T ss_dssp             SCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSSTT
T ss_pred             CCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEccccccC
Confidence            9999999999999999999999999986554444444443322    789999999999853

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.59  E-value=9.9e-16  Score=118.04  Aligned_cols=103  Identities=17%  Similarity=0.149  Sum_probs=65.1

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCH--H
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSY--E  129 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~--~  129 (198)
                      +.+.+|||||......   .....+|++++|+|++..+.+..+..  . .     .+.|.++|+||+|+.+......  +
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~--~-~-----~~~p~ivv~NK~Dl~~~~~~~~~~~  217 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK--G-L-----MEVADLIVINKDDGDNHTNVAIARH  217 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH--H-H-----HHHCSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH--h-h-----hcccCEEEEECCCCCChHHHHHHHH
Confidence            5799999999654322   24588999999999976543211111  0 0     1358899999999864321110  1


Q ss_pred             HHHHHHHHh-------CCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          130 TAKAFADEI-------GIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       130 ~~~~~~~~~-------~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ++.......       ..+++++||++|.|+++++++|.+.+.
T Consensus       218 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          218 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            222222222       346899999999999999999998765

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.58  E-value=1e-14  Score=108.27  Aligned_cols=112  Identities=14%  Similarity=0.017  Sum_probs=68.4

Q ss_pred             EEEEEEeCCCccccccccc------ccccCccEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITS------SYYRGAHGIIIVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      +.+.+|||||.........      ..+.. +++|+++|+........+.. +..........+.|+++|+||+|+....
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            4789999999865433221      23456 89999998764322222111 1111111112258999999999986432


Q ss_pred             cCCHHHHHHH----------------------------HHHhC--CcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          125 VVSYETAKAF----------------------------ADEIG--IPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       125 ~~~~~~~~~~----------------------------~~~~~--~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ..  +++.++                            +..++  ++++++||+++.|+++++++|.+.+..
T Consensus       188 ~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          188 EK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             HH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            11  111111                            23333  478999999999999999999887653

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.56  E-value=4.6e-15  Score=123.60  Aligned_cols=157  Identities=17%  Similarity=0.150  Sum_probs=94.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCccccee-------------------------------------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGV-------------------------------------------   38 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~-------------------------------------------   38 (198)
                      ..+|+|+|.+++|||||+|+|++..+.+ .....+..                                           
T Consensus        51 lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~~g  130 (772)
T 3zvr_A           51 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  130 (772)
T ss_dssp             CSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhhcC
Confidence            4689999999999999999999876522 11111000                                           


Q ss_pred             -------eeEEEEEEECCeEEEEEEEeCCCcccc-------------cccccccc-cCccEEEEEEECCChhhHHHHHHH
Q 043946           39 -------DFKIRTVEQDGKTVKLQIWDTAGQERF-------------RTITSSYY-RGAHGIIIVYDVTDQESFNNVKQW   97 (198)
Q Consensus        39 -------~~~~~~~~~~~~~~~~~i~D~~g~~~~-------------~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~   97 (198)
                             ......+..++. ..+.++||||....             ......++ ..+|++++|+|++.+..-.....+
T Consensus       131 ~~~~is~~~i~l~I~~P~~-~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~l  209 (772)
T 3zvr_A          131 TNKGISPVPINLRVYSPHV-LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  209 (772)
T ss_dssp             STTCCCSCCEEEEEEETTC-CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHH
T ss_pred             CCCcccccceEEEEecCCC-CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHH
Confidence                   001111111111 25789999995431             11222333 678999999999864322222222


Q ss_pred             HHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH--hC-CcEEEEeccCCCCHHHHHHHHHHH
Q 043946           98 LNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE--IG-IPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        98 ~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~--~~-~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      .   ......+.|+++|+||+|+.................  .+ .+++.+||++|.|++++++.|.+.
T Consensus       210 l---~~L~~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          210 A---KEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             H---HHHCTTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             H---HHHHhcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            2   233345789999999999976543322211100000  12 246779999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.48  E-value=1.3e-13  Score=105.87  Aligned_cols=103  Identities=11%  Similarity=0.123  Sum_probs=63.4

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.++||+|...-.   ......+|.+++|+|+...+....+...   +.     ..+.++++||+|+...........
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHHH
Confidence            578999999964321   2234789999999998754321111111   11     235678889999743222112222


Q ss_pred             HHHHHH----------hCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          132 KAFADE----------IGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       132 ~~~~~~----------~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ..+...          +..+++.+|++++.|++++++.|.+...
T Consensus       217 ~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          217 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            333221          1357899999999999999999988764

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.45  E-value=2.6e-13  Score=102.81  Aligned_cols=97  Identities=19%  Similarity=0.173  Sum_probs=77.6

Q ss_pred             cccccccccccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC-HHHHHHHHHHhC
Q 043946           62 QERFRTITSSYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS-YETAKAFADEIG  139 (198)
Q Consensus        62 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~-~~~~~~~~~~~~  139 (198)
                      ++.+..+...++.++|++++|+|++++. ++..+..|+..+..   .++|+++|+||+|+.+...+. .++...++...+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            4556677788999999999999999986 78888888876654   378999999999996543212 344556667778


Q ss_pred             CcEEEEeccCCCCHHHHHHHHH
Q 043946          140 IPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus       140 ~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      .+++++||++|.|++++++.+.
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHhhcc
Confidence            8999999999999999998763

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.41  E-value=6.1e-12  Score=98.03  Aligned_cols=85  Identities=20%  Similarity=0.198  Sum_probs=59.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccc--
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQER--   64 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~--   64 (198)
                      ..+|+++|++|||||||+|.|.+... .....|+.+.+...-.+.+.+.               ...+.+||+||...  
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~   99 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGA   99 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCC
Confidence            46899999999999999999998654 3344454444444445555541               13589999999542  


Q ss_pred             -----ccccccccccCccEEEEEEECCC
Q 043946           65 -----FRTITSSYYRGAHGIIIVYDVTD   87 (198)
Q Consensus        65 -----~~~~~~~~~~~~d~~i~v~d~~~   87 (198)
                           +...+...++.+|++++|+|+.+
T Consensus       100 s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          100 STGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                 22234445688999999999863

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.39  E-value=1.1e-13  Score=97.80  Aligned_cols=105  Identities=8%  Similarity=-0.029  Sum_probs=68.5

Q ss_pred             CCcccccccccccccCccEEEEEEECCChhhHHHHHHH---HHHHHHhc-CCCCcEEEEEeCC-CCCCCCcCCHHHHHHH
Q 043946           60 AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQW---LNEIDRYA-SENVNKLLVGNKC-DLTDKKVVSYETAKAF  134 (198)
Q Consensus        60 ~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~---~~~~~~~~-~~~~p~iiv~nK~-D~~~~~~~~~~~~~~~  134 (198)
                      +|++.+..+|..|+.++|++|||+|.+|++.+..-.++   ...+.... ..+.|++|++||. |++.  ..+..++.+.
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~e~  187 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAHE  187 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHHHH
Confidence            36778899999999999999999999987543322222   22222221 2478999999995 6754  3455555443


Q ss_pred             HHHh----CCcEEEEeccCCCCHHHHHHHHHHHHHH
Q 043946          135 ADEI----GIPFMETSAKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       135 ~~~~----~~~~~~~S~~~~~~i~~~~~~l~~~~~~  166 (198)
                      ....    .-.+..|||++|+|+.|.++||.+.+..
T Consensus       188 L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          188 LHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             TTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             cCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence            3221    2247899999999999999999877654

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.37  E-value=3.3e-13  Score=105.01  Aligned_cols=86  Identities=17%  Similarity=0.157  Sum_probs=51.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCccccc-
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQERFR-   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~-   66 (198)
                      .++|+++|.+|||||||+|+|.+........++.+.+.....+.+++.               ...+.+||+||..... 
T Consensus        22 ~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as  101 (396)
T 2ohf_A           22 SLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAH  101 (396)
T ss_dssp             CCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC------
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccc
Confidence            478999999999999999999987654444444444444444544432               2359999999976532 


Q ss_pred             ------ccccccccCccEEEEEEECCCh
Q 043946           67 ------TITSSYYRGAHGIIIVYDVTDQ   88 (198)
Q Consensus        67 ------~~~~~~~~~~d~~i~v~d~~~~   88 (198)
                            ..+..+++.+|++++|+|+.+.
T Consensus       102 ~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A          102 NGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             -----CCHHHHHHHTSSSEEEEEEC---
T ss_pred             hhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence                  2455678999999999998754

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.30  E-value=2.3e-12  Score=95.37  Aligned_cols=107  Identities=7%  Similarity=-0.014  Sum_probs=73.7

Q ss_pred             CCCcccccccccccccCccEEEEEEECCChhhHH---HHHHHHHHHHHhc-CCCCcEEEEEeC-CCCCCCCcCCHHHHHH
Q 043946           59 TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFN---NVKQWLNEIDRYA-SENVNKLLVGNK-CDLTDKKVVSYETAKA  133 (198)
Q Consensus        59 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~---~~~~~~~~~~~~~-~~~~p~iiv~nK-~D~~~~~~~~~~~~~~  133 (198)
                      .+|++.+...|..|+.++|++|||+|.+|++.+.   ++.+....+.... ..+.|++|++|| .|++..  .+..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHHH
Confidence            3567788999999999999999999999976433   2222223332221 347899999996 687543  45555544


Q ss_pred             HHHHh----CCcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          134 FADEI----GIPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       134 ~~~~~----~~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      .....    .-.+..|||.+|+|+.|.++||.+.+..+
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            33221    12478999999999999999999887543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.14  E-value=4e-11  Score=93.13  Aligned_cols=114  Identities=24%  Similarity=0.313  Sum_probs=81.6

Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH----HHH
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA----FAD  136 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~----~~~  136 (198)
                      ..+.|......+.+.+|++++|+|+.++.     ..|...+.+... +.|+++|+||+|+.... ...+.+.+    +++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            35677788888889999999999999864     445555655544 68999999999996533 23344433    356


Q ss_pred             HhCC---cEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          137 EIGI---PFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       137 ~~~~---~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ..+.   .++.+||++|.|+++++++|.+...             ...+...+.++.+||+
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~~-------------~~~i~~vG~~nvGKSt  175 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYRG-------------GKDVYVVGCTNVGKST  175 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHHT-------------TSCEEEEEBTTSSHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhcc-------------cceEEEecCCCCChhH
Confidence            6677   7899999999999999999876431             1234555666666553

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.14  E-value=4.3e-12  Score=98.65  Aligned_cols=140  Identities=14%  Similarity=0.213  Sum_probs=83.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC------CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-------cc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD------SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-------TS   70 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~   70 (198)
                      .+|+++|.+|+|||||+|+|.+.      .......+  +++.....+.++.   .+.++||||.......       ..
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~--gtT~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFP--GTTLDMIEIPLES---GATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECT--TSSCEEEEEECST---TCEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCC--CeEEeeEEEEeCC---CeEEEeCCCcCcHHHHHHHHhHHHH
Confidence            46999999999999999999865      22112222  2334444455543   2789999995432211       11


Q ss_pred             ccc---cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEec
Q 043946           71 SYY---RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus        71 ~~~---~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                      ..+   ...+.+++++++.....+..+..    +......+.|+++++||.|....... ....+.+.+..+..+.+.++
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  312 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSK  312 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCG
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCc
Confidence            112   67899999999853211001111    11223346899999999998654432 33444566666766666666


Q ss_pred             cCCCCH
Q 043946          148 KDSLNV  153 (198)
Q Consensus       148 ~~~~~i  153 (198)
                      .+..++
T Consensus       313 ~~~~~~  318 (369)
T 3ec1_A          313 RYAAEF  318 (369)
T ss_dssp             GGTTTC
T ss_pred             hhhhhc
Confidence            654444

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.11  E-value=4.1e-12  Score=98.68  Aligned_cols=137  Identities=10%  Similarity=0.114  Sum_probs=77.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-----CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccccc--------cc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-----DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI--------TS   70 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~   70 (198)
                      .+|+++|.+|+|||||+|+|.+....     .......+++.....+.+...   +.++||||......+        ..
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            47999999999999999999864211     111122233334444544432   789999996432211        01


Q ss_pred             c--cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc
Q 043946           71 S--YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK  148 (198)
Q Consensus        71 ~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  148 (198)
                      .  .....+.++++++.........+..    +......+.|+++++||.|....... ....+.+.+..+..+.+.++.
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~~  312 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPTPE  312 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSCHH
T ss_pred             HhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCchh
Confidence            1  1366788999998743211000000    11223346899999999998754422 334445556666655555544

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=99.07  E-value=5.6e-11  Score=89.07  Aligned_cols=129  Identities=16%  Similarity=0.134  Sum_probs=84.0

Q ss_pred             EEeCCCcc-cccccccccccCccEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHH
Q 043946           56 IWDTAGQE-RFRTITSSYYRGAHGIIIVYDVTDQESFN--NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAK  132 (198)
Q Consensus        56 i~D~~g~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~  132 (198)
                      +-..||+. .........+.++|++++|+|+.++.+..  .+..++        .++|.++|+||+|+.+..  ..+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~--~~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAA--VTQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHH--HHHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHH--HHHHHH
Confidence            34678875 33455667789999999999999987643  233322        368999999999996421  112223


Q ss_pred             HHHHHhCCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc-CcCCCCCCCCccccCCCCCCCCCC
Q 043946          133 AFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS-QPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       133 ~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      .+.+..+.+++.+||.++.|++++++.+.+.+.+.... ......+.+..+-+.+.++.+||+
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~~~~~~~~~~~~~~~~v~~vG~~nvGKSs  135 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKST  135 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEESTTSSHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEecCCCchHH
Confidence            34444578999999999999999999988877643221 111122344567778888888875

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.05  E-value=2.7e-10  Score=89.44  Aligned_cols=139  Identities=16%  Similarity=0.220  Sum_probs=67.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCc----ccceeeeEEEEEEECCeEEEEEEEeCCCcccc--------------
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYI----STIGVDFKIRTVEQDGKTVKLQIWDTAGQERF--------------   65 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------------   65 (198)
                      ++++|+|++|+|||||+|.|.+..+.....    +..........+...+....+.++|++|....              
T Consensus        43 ~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~i  122 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEFI  122 (427)
T ss_dssp             EEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHHH
Confidence            579999999999999999998764322111    11111111112222232346889999874321              


Q ss_pred             cccc----cc---------cccCc--cE-EEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--
Q 043946           66 RTIT----SS---------YYRGA--HG-IIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--  127 (198)
Q Consensus        66 ~~~~----~~---------~~~~~--d~-~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--  127 (198)
                      ...+    ..         ....+  |+ +.|+.|+..+-+...    ...+.... .+.|+|+|+||+|.....+..  
T Consensus       123 ~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D----ieilk~L~-~~~~vI~Vi~KtD~Lt~~E~~~l  197 (427)
T 2qag_B          123 DAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD----LVTMKKLD-SKVNIIPIIAKADAISKSELTKF  197 (427)
T ss_dssp             HHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH----HHHHHHTC-SCSEEEEEESCGGGSCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH----HHHHHHHh-hCCCEEEEEcchhccchHHHHHH
Confidence            0000    00         11222  33 555666554322222    22233333 578999999999976432210  


Q ss_pred             HHHHHHHHHHhCCcEEEEec
Q 043946          128 YETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~S~  147 (198)
                      .+.+.......+++++.+|.
T Consensus       198 ~~~I~~~L~~~gi~I~~is~  217 (427)
T 2qag_B          198 KIKITSELVSNGVQIYQFPT  217 (427)
T ss_dssp             HHHHHHHHBTTBCCCCCCC-
T ss_pred             HHHHHHHHHHcCCcEEecCC
Confidence            11222222334566666664

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.03  E-value=9.8e-11  Score=91.02  Aligned_cols=114  Identities=21%  Similarity=0.327  Sum_probs=81.4

Q ss_pred             CcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHH----HH
Q 043946           61 GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAF----AD  136 (198)
Q Consensus        61 g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~----~~  136 (198)
                      .++.|......++..++++++|+|+.++.+     .|...+.+... +.|+++|+||+|+.... ...+.+.++    ++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-DNPILLVGNKADLLPRS-VKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-TSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-CCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHH
Confidence            467788888888899999999999999763     34444444433 68999999999996542 233444433    45


Q ss_pred             HhCC---cEEEEeccCCCCHHHHHHHHHHHHHHhhhcCcCCCCCCCCccccCCCCCCCCCC
Q 043946          137 EIGI---PFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       137 ~~~~---~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ..+.   .++.+||++|.|++++++.|.+...             ...+...+.++.+||+
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~~-------------~~~i~~vG~~nvGKSt  177 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYRE-------------GGDVYVVGCTNVGKST  177 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHHT-------------TSCEEEECCTTSSHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhcc-------------cCcEEEEcCCCCchHH
Confidence            5566   6899999999999999999876541             1346667777777764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.00  E-value=8e-10  Score=82.29  Aligned_cols=137  Identities=20%  Similarity=0.151  Sum_probs=71.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCc-------ccceeeeEEEEEEE--CCeEEEEEEEeCCCccccc-------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYI-------STIGVDFKIRTVEQ--DGKTVKLQIWDTAGQERFR-------   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~-------~~~~~~~~~~~~~~--~~~~~~~~i~D~~g~~~~~-------   66 (198)
                      .++++|+|++|+|||||+|.|.+...+....       ...........+..  .+-...++++|++|.....       
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            5899999999999999999997532211100       00000011111111  1212367899999832100       


Q ss_pred             ---------------------ccccccccCccEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           67 ---------------------TITSSYYRGAHGIIIVYDVTD-QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        67 ---------------------~~~~~~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                                           ......+.++++.++++|... +-....    ...+...... .++++|++|+|.....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD----~~~l~~L~~~-~~vI~Vi~K~D~lt~~  156 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD----LEFMKHLSKV-VNIIPVIAKADTMTLE  156 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH----HHHHHHHHTT-SEEEEEETTGGGSCHH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH----HHHHHHHHhc-CcEEEEEeccccCCHH
Confidence                                 001122345688899998542 211111    2223333333 8999999999976432


Q ss_pred             cC--CHHHHHHHHHHhCCcEEE
Q 043946          125 VV--SYETAKAFADEIGIPFME  144 (198)
Q Consensus       125 ~~--~~~~~~~~~~~~~~~~~~  144 (198)
                      +.  ..+.+.+....+++.+++
T Consensus       157 e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          157 EKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHcCccccC
Confidence            21  123344455666776554

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.99  E-value=2.1e-10  Score=92.13  Aligned_cols=101  Identities=15%  Similarity=0.088  Sum_probs=61.1

Q ss_pred             EEEEEEeCCCcccccc-cc---ccc--ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRT-IT---SSY--YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-iiv~nK~D~~~~~  124 (198)
                      +.+.|+||||...... ..   ...  ...+|.+++|+|+.......   .....+...    .|+ .+|+||+|.....
T Consensus       184 ~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~~----~~i~gvVlNK~D~~~~~  256 (504)
T 2j37_W          184 FEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKDK----VDVASVIVTKLDGHAKG  256 (504)
T ss_dssp             CCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHHH----HCCCCEEEECTTSCCCC
T ss_pred             CcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHhh----cCceEEEEeCCccccch
Confidence            5789999999653211 11   001  22789999999998754321   122223221    464 8899999986322


Q ss_pred             cCCHHHHHHHHHHhCCcE------------------EEEeccCCCC-HHHHHHHHHHH
Q 043946          125 VVSYETAKAFADEIGIPF------------------METSAKDSLN-VEQAFMAMTAD  163 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~------------------~~~S~~~~~~-i~~~~~~l~~~  163 (198)
                          ..........+.++                  ..+|+..|.| +.++++++.+.
T Consensus       257 ----g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          257 ----GGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             ----THHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ----HHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence                11222334555543                  2358888988 99999988765

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.91  E-value=3e-08  Score=77.87  Aligned_cols=154  Identities=14%  Similarity=0.167  Sum_probs=82.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccc-eee--eEEEEEEECCeEEEEEEEeCCCcccccc-----cccccccC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTI-GVD--FKIRTVEQDGKTVKLQIWDTAGQERFRT-----ITSSYYRG   75 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~~~   75 (198)
                      ..++|+|++|||||||+|.+.+...+....... +.+  .....+.... ...+.+||++|......     +...-+..
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~-~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~  148 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKFYE  148 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTGGG
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccc-cCCeeehHhhcccchHHHHHHHHHHcCCCc
Confidence            478999999999999999998743221111111 100  0011111111 11478999998532111     11112333


Q ss_pred             ccEEEEEEECC--ChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-------CCcCCHHH----HHHHH----HHh
Q 043946           76 AHGIIIVYDVT--DQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-------KKVVSYET----AKAFA----DEI  138 (198)
Q Consensus        76 ~d~~i~v~d~~--~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~-------~~~~~~~~----~~~~~----~~~  138 (198)
                      .+..++ ++..  .....    .....+..   .+.|+++|.||.|+.-       -+....++    +.++.    .+.
T Consensus       149 ~~~~~~-lS~G~~~kqrv----~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~  220 (413)
T 1tq4_A          149 YDFFII-ISATRFKKNDI----DIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  220 (413)
T ss_dssp             CSEEEE-EESSCCCHHHH----HHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCeEE-eCCCCccHHHH----HHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            455555 7776  33221    12222222   2679999999999731       11112232    33332    122


Q ss_pred             C---CcEEEEec--cCCCCHHHHHHHHHHHHHH
Q 043946          139 G---IPFMETSA--KDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       139 ~---~~~~~~S~--~~~~~i~~~~~~l~~~~~~  166 (198)
                      +   ..++.+|+  .++.|++++.+.|.+.+.+
T Consensus       221 g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          221 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             CCCCCcEEEEecCcCCccCHHHHHHHHHHhCcc
Confidence            2   25788999  5566799999999877643

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.70  E-value=1.6e-08  Score=75.67  Aligned_cols=57  Identities=28%  Similarity=0.361  Sum_probs=35.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   63 (198)
                      ..++|+++|.||||||||+|+|.+.... ....+  +++.....+..+.   .+.+|||||..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~--g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP--GITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCCC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCceeecCCCC--CeeeeeEEEEeCC---CEEEEECcCcC
Confidence            3578999999999999999999976532 22222  2222223333433   58899999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.64  E-value=1.1e-08  Score=75.80  Aligned_cols=57  Identities=19%  Similarity=0.275  Sum_probs=35.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   64 (198)
                      ++++++|.+|+|||||+|+|.+..... ..+..+.+.....+..+.   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            589999999999999999999765422 122223333223333332   589999999654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.59  E-value=3.1e-09  Score=78.79  Aligned_cols=93  Identities=15%  Similarity=0.120  Sum_probs=61.2

Q ss_pred             CCCccc-ccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH
Q 043946           59 TAGQER-FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE  137 (198)
Q Consensus        59 ~~g~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~  137 (198)
                      .||+.. ........+.++|+++.|+|+.++.+....  .   +. ..  ++|.++|+||+|+.+..  ..+....+.+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~--~---l~-ll--~k~~iivlNK~DL~~~~--~~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY--G---VD-FS--RKETIILLNKVDIADEK--TTKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT--T---SC-CT--TSEEEEEEECGGGSCHH--HHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh--H---HH-hc--CCCcEEEEECccCCCHH--HHHHHHHHHHH
Confidence            356542 223456678899999999999987653211  0   11 11  68999999999996531  12233344555


Q ss_pred             hCCcEEEEeccCCCCHHHHHHHHHH
Q 043946          138 IGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus       138 ~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      .+.++ .+|++++.|+++++++|.+
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHH
Confidence            67888 9999999999999887644

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.59  E-value=8.7e-08  Score=75.66  Aligned_cols=86  Identities=21%  Similarity=0.110  Sum_probs=51.6

Q ss_pred             EEEEEEeCCCcccccccc------cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTIT------SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.|+||+|........      .......|.+++|+|+........   ....+...   -.+..+|+||.|...   
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~---~a~~f~~~---~~i~gVIlTKlD~~~---  253 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYN---QALAFKEA---TPIGSIIVTKLDGSA---  253 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHH---HHHHHHHS---CTTEEEEEECCSSCS---
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHH---HHHHHHhh---CCCeEEEEECCCCcc---
Confidence            568899999953321110      011235789999999987543222   22223222   235678999999753   


Q ss_pred             CCHHHHHHHHHHhCCcEEEEec
Q 043946          126 VSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                       ....+.......+.|+..++.
T Consensus       254 -~gG~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          254 -KGGGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             -SHHHHHHHHHTTCCCEEEEEC
T ss_pred             -cccHHHHHHHHHCCCEEEEEc
Confidence             234455566667888877765

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.56  E-value=7.7e-08  Score=76.10  Aligned_cols=83  Identities=20%  Similarity=0.102  Sum_probs=48.2

Q ss_pred             EEEEEEeCCCccccccc------ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-c-EEEEEeCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTI------TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENV-N-KLLVGNKCDLTDK  123 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p-~iiv~nK~D~~~~  123 (198)
                      +.+.|+||||.......      ....+..+|.+++|+|+......   ......+   .. .. | ..+|+||+|....
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~---~~-~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQA---GIQAKAF---KE-AVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGH---HHHHHHH---HT-TSCSCEEEEEECSSSCST
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHH---HHHHHHH---hh-cccCCeEEEEeCCCCccc
Confidence            56899999996532111      01122368999999998765421   1122222   22 34 5 7889999997422


Q ss_pred             CcCCHHHHHHHHHHhCCcEEEE
Q 043946          124 KVVSYETAKAFADEIGIPFMET  145 (198)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~  145 (198)
                          ...+..+....+.++..+
T Consensus       254 ----~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          254 ----GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             ----THHHHHHHHHSSCCEEEE
T ss_pred             ----hHHHHHHHHHHCCCEEEe
Confidence                223334666677766554

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.40  E-value=3.9e-07  Score=74.53  Aligned_cols=63  Identities=17%  Similarity=0.075  Sum_probs=38.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEE--E-CCeEEEEEEEeCCCccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVE--Q-DGKTVKLQIWDTAGQER   64 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~--~-~~~~~~~~i~D~~g~~~   64 (198)
                      ..++|+|+|.+|+|||||+|+|.+.... .....+.+.+.....+.  . ......+.++||||...
T Consensus        37 ~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            3578999999999999999999986532 11111112222222221  1 11225688999999654

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.37  E-value=1.4e-07  Score=71.21  Aligned_cols=89  Identities=12%  Similarity=0.170  Sum_probs=60.0

Q ss_pred             cccccccCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHHHhCCcEEE
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFADEIGIPFME  144 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~  144 (198)
                      +....+.++|.+++|+|+.+|.. ...+..++...   ...++|.++|+||+|+.+....  ..+...+.....+.+++.
T Consensus        79 l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~---~~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~  155 (307)
T 1t9h_A           79 LIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLV---EANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYL  155 (307)
T ss_dssp             ETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHH---HTTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEE
T ss_pred             hhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHH---HHCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEEE
Confidence            34446788999999999997654 33333333222   2347899999999999754210  123444555566889999


Q ss_pred             EeccCCCCHHHHHHH
Q 043946          145 TSAKDSLNVEQAFMA  159 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~  159 (198)
                      +|+.++.|++++++.
T Consensus       156 ~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          156 TSSKDQDSLADIIPH  170 (307)
T ss_dssp             CCHHHHTTCTTTGGG
T ss_pred             EecCCCCCHHHHHhh
Confidence            999999888766544

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.29  E-value=1.2e-07  Score=74.72  Aligned_cols=90  Identities=16%  Similarity=0.070  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCccc--cccc----ccc--cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           52 VKLQIWDTAGQER--FRTI----TSS--YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        52 ~~~~i~D~~g~~~--~~~~----~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      +.+.++||||...  ....    ...  .....+.+++|+|+...+....   ....+...   -.+..+|+||.|... 
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~---~~~~gVIlTKlD~~a-  252 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQA---SPIGSVIITKMDGTA-  252 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHH---CSSEEEEEECGGGCS-
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhcc---cCCcEEEEecccccc-
Confidence            5678999999543  1111    110  1124589999999986543222   22333322   246788999999742 


Q ss_pred             CcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946          124 KVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                         ....+.......+.|+..++.  |+++
T Consensus       253 ---~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ---KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ---CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ---cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence               345556666678898877775  5554

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.23  E-value=2.3e-06  Score=64.49  Aligned_cols=91  Identities=13%  Similarity=0.101  Sum_probs=56.0

Q ss_pred             EEEEEEeCCCccc--ccc-ccc-----ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCC
Q 043946           52 VKLQIWDTAGQER--FRT-ITS-----SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTD  122 (198)
Q Consensus        52 ~~~~i~D~~g~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~  122 (198)
                      +.+.++||||...  ... +..     .....+|.+++|+|+......   ......+..    ..| ..+|+||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKA---YDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHH---HHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5689999999765  211 110     124468999999998754221   222222322    245 678899999642


Q ss_pred             CCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                          ....+..+....++++..++  .|+++++
T Consensus       254 ----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          254 ----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             ----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence                24455667777888887776  5666654

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.19  E-value=2.3e-06  Score=70.64  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .|+|+|++|||||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            58999999999999999998753

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.04  E-value=1.5e-05  Score=61.45  Aligned_cols=85  Identities=21%  Similarity=0.224  Sum_probs=54.3

Q ss_pred             cccCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC-CHHHHHHHHHHhCCcEEEEeccC
Q 043946           72 YYRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV-SYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      ...++|.+++|... +|.. ...+..++......   ++|.++|+||+|+.+.... ..++........+.+++.+|+.+
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            45788999987654 4543 33333443332222   6788999999999653210 01122333445678999999999


Q ss_pred             CCCHHHHHHHH
Q 043946          150 SLNVEQAFMAM  160 (198)
Q Consensus       150 ~~~i~~~~~~l  160 (198)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99999887643

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.92  E-value=3.6e-07  Score=73.23  Aligned_cols=112  Identities=12%  Similarity=0.152  Sum_probs=62.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc--ccccc--------ccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER--FRTIT--------SSY   72 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~--------~~~   72 (198)
                      .+.|+++|.+|+||||+.++|...-.. ...++.............+......+||..|.+.  ....+        ..+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~-~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~  117 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKF  117 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhc-cCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            468999999999999999998743110 1111111000000000011112346788888632  22222        456


Q ss_pred             ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           73 YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +...++.++|+|.++. .......|+..+...   +.+++++-..++
T Consensus       118 l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~---~~~vv~l~~~~~  160 (469)
T 1bif_A          118 LSEEGGHVAVFDATNT-TRERRAMIFNFGEQN---GYKTFFVESICV  160 (469)
T ss_dssp             HHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH---TCEEEEEEECCC
T ss_pred             HHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc---CCcEEEEEEECC
Confidence            6667888999999986 445556666666554   345555544333

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.92  E-value=1.1e-05  Score=61.57  Aligned_cols=91  Identities=13%  Similarity=0.087  Sum_probs=52.1

Q ss_pred             EEEEEeCCCcccccccccc------cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC
Q 043946           53 KLQIWDTAGQERFRTITSS------YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV  126 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~------~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~  126 (198)
                      .+.++|++|..........      ..-..|-.+++.|+.....   +......+....   ....+++||.|...    
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~~---~~~~~~~~~~~~---~it~iilTKlD~~a----  282 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGNA---IVEQARQFNEAV---KIDGIILTKLDADA----  282 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTTH---HHHHHHHHHHHS---CCCEEEEECGGGCS----
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHHH---HHHHHHHHHHhc---CCCEEEEeCcCCcc----
Confidence            3567899986432211100      1123688999999765532   223333333221   23467889999632    


Q ss_pred             CHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          127 SYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      ....+.......+.++..++  +|+++++
T Consensus       283 ~~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          283 RGGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             CCHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             chhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            23445567777888888777  6666543

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.83  E-value=3.4e-05  Score=61.16  Aligned_cols=23  Identities=22%  Similarity=0.203  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .--|.|+|++++|||+|+|+|++
T Consensus        67 v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           67 VVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHhh
Confidence            34589999999999999999985

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=97.72  E-value=2e-05  Score=55.66  Aligned_cols=85  Identities=15%  Similarity=0.063  Sum_probs=56.0

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhc--CCCCcEEEEEeCCCCCCCCcCCHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA--SENVNKLLVGNKCDLTDKKVVSYE  129 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~iiv~nK~D~~~~~~~~~~  129 (198)
                      +.+.++|+|+..  .......+..+|.+|+++..+...  ..+....+.+....  ..+.++.+|+|+.|....   ...
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~---~~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT---MLN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE---EEH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch---HHH
Confidence            568899999864  333455667799999999887544  56666666665543  235678999999995322   234


Q ss_pred             HHHHHHHHhCCcEE
Q 043946          130 TAKAFADEIGIPFM  143 (198)
Q Consensus       130 ~~~~~~~~~~~~~~  143 (198)
                      ++.+..+.++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            45555556665544

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=97.68  E-value=0.00029  Score=50.12  Aligned_cols=85  Identities=12%  Similarity=0.121  Sum_probs=55.9

Q ss_pred             EEEEEEeCCCc-ccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHH
Q 043946           52 VKLQIWDTAGQ-ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYET  130 (198)
Q Consensus        52 ~~~~i~D~~g~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~  130 (198)
                      +.+.++|+|+. ...  .....+..+|.+|+++..+ ..++..+...++.+....  +.++.+|+|+.|.....  ...+
T Consensus        68 yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~--~~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPSK--DGDE  140 (209)
T ss_dssp             CSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTSC--HHHH
T ss_pred             CCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccch--HHHH
Confidence            56889999876 332  2345667899999999876 455666666666666543  46788999999964311  2345


Q ss_pred             HHHHHHHhCCcEE
Q 043946          131 AKAFADEIGIPFM  143 (198)
Q Consensus       131 ~~~~~~~~~~~~~  143 (198)
                      +.+..+.++.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            5555555665544

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.63  E-value=3e-05  Score=53.88  Aligned_cols=22  Identities=32%  Similarity=0.807  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++++++|++|+|||||++.+.+
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g   22 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998875

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.61  E-value=2e-05  Score=59.54  Aligned_cols=22  Identities=41%  Similarity=0.638  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||+|.|.+.
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHhccc
Confidence            5799999999999999999864

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.53  E-value=4.7e-05  Score=52.89  Aligned_cols=21  Identities=29%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++|+|++|||||||++.|..
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999975

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.46  E-value=9.9e-05  Score=56.85  Aligned_cols=23  Identities=39%  Similarity=0.481  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .++|+|++|||||||+|.|.+..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            47899999999999999999754

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.46  E-value=6.5e-05  Score=53.03  Aligned_cols=21  Identities=43%  Similarity=0.646  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.|.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            479999999999999999875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.43  E-value=0.0017  Score=51.43  Aligned_cols=81  Identities=15%  Similarity=0.104  Sum_probs=44.9

Q ss_pred             EEEEEEeCCCccccccccc------ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITS------SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~  124 (198)
                      +.+.|+||||.-.......      ..+...+.+++|+|+......   ......+..    ..+ .-+|+||.|.....
T Consensus       184 ~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~---~~~~~~f~~----~l~i~gvVlnK~D~~~~~  256 (433)
T 2xxa_A          184 YDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDA---ANTAKAFNE----ALPLTGVVLTKVDGDARG  256 (433)
T ss_dssp             CSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTH---HHHHHHHHH----HSCCCCEEEECTTSSSCC
T ss_pred             CCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHH---HHHHHHHhc----cCCCeEEEEecCCCCccH
Confidence            5689999999543321111      123468899999998764332   122222322    233 34689999974321


Q ss_pred             cCCHHHHHHHHHHhCCcEE
Q 043946          125 VVSYETAKAFADEIGIPFM  143 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~  143 (198)
                          ..+..+....+.++.
T Consensus       257 ----g~~l~i~~~~~~Pi~  271 (433)
T 2xxa_A          257 ----GAALSIRHITGKPIK  271 (433)
T ss_dssp             ----THHHHHHHHHCCCEE
T ss_pred             ----HHHHHHHHHHCCCeE
Confidence                233345555666543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.42  E-value=0.00035  Score=52.61  Aligned_cols=20  Identities=50%  Similarity=0.743  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      .++++|++|||||||+|.|.
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999998

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.40  E-value=9e-05  Score=51.70  Aligned_cols=22  Identities=41%  Similarity=0.507  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|+++|++|||||||++.|.+.
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999999864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.37  E-value=9.6e-05  Score=52.12  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++++|++|||||||++.|.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4789999999999999999763

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.34  E-value=0.00012  Score=51.21  Aligned_cols=20  Identities=40%  Similarity=0.664  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|+||+|||||||+++|..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999975

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.34  E-value=0.00011  Score=51.81  Aligned_cols=21  Identities=43%  Similarity=0.651  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||||++.|..
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHh
Confidence            478999999999999999985

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.33  E-value=0.00011  Score=52.76  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++|+|++|||||||++.|.+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999999763

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.32  E-value=0.00011  Score=52.10  Aligned_cols=21  Identities=33%  Similarity=0.513  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|++|||||||++.+.+.
T Consensus        23 ~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           23 VVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999998763

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.31  E-value=0.00012  Score=50.46  Aligned_cols=19  Identities=42%  Similarity=0.649  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      ++++|++|||||||++.+.
T Consensus        12 ~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEECCTTSCHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6899999999999999754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.31  E-value=0.00017  Score=49.59  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +..|++.|++||||||+.+.|..
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHh
Confidence            35689999999999999999986

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.30  E-value=0.00012  Score=52.40  Aligned_cols=22  Identities=36%  Similarity=0.724  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.|.+.
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3789999999999999998763

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.29  E-value=0.00014  Score=51.73  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|+|+|++|||||||++.|...
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            3789999999999999999864

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.26  E-value=0.00014  Score=51.58  Aligned_cols=22  Identities=36%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++|||||||++.|.+
T Consensus        23 ~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           23 QLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.26  E-value=0.00016  Score=51.12  Aligned_cols=21  Identities=38%  Similarity=0.643  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++||||||+++.|..
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            579999999999999999975

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.24  E-value=0.00017  Score=51.36  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999853

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.24  E-value=0.00018  Score=51.12  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+++|+|||||+|...+|..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.24  E-value=0.00018  Score=49.14  Aligned_cols=20  Identities=30%  Similarity=0.353  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 043946            4 FKLLLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l   23 (198)
                      +-|+|.|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999999

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.23  E-value=0.00019  Score=51.20  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999853

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.20  E-value=0.00019  Score=49.14  Aligned_cols=22  Identities=32%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+++|++||||||+.+.|..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.19  E-value=0.0002  Score=48.64  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+.
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999998764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.18  E-value=0.00021  Score=48.75  Aligned_cols=21  Identities=19%  Similarity=0.233  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++||||||+.+.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.18  E-value=0.00022  Score=49.71  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++++|++||||||+++.|..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.17  E-value=0.00021  Score=51.87  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            3689999999999999988863

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.17  E-value=0.00021  Score=50.43  Aligned_cols=23  Identities=39%  Similarity=0.621  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..|+|+|++||||||+++.|...
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999998764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.16  E-value=0.00025  Score=51.67  Aligned_cols=21  Identities=29%  Similarity=0.624  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 043946            4 FKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~   24 (198)
                      ..|+|+|++|||||||++.|.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999997

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.14  E-value=0.00024  Score=50.06  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|+|++||||||+++.|..
T Consensus        31 ~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           31 HVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.13  E-value=0.00025  Score=51.09  Aligned_cols=21  Identities=43%  Similarity=0.512  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999988864

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.12  E-value=0.00027  Score=50.31  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.11  E-value=0.0003  Score=49.40  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.|+|.|.+||||||+.+.|..
T Consensus         1 ~~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            1 MKIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCccCHHHHHHHHHH
Confidence            3689999999999999998864

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.10  E-value=0.0003  Score=51.24  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999998874

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.09  E-value=0.00036  Score=48.51  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++||||||+.+.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.09  E-value=0.00031  Score=48.30  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|++.|++||||||+.+.|..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999975

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.08  E-value=0.0003  Score=49.56  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|+|++||||||+.+.|..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999875

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.08  E-value=0.00035  Score=49.18  Aligned_cols=21  Identities=38%  Similarity=0.585  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++||||||+.+.|..
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999998863

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=97.08  E-value=0.00031  Score=48.53  Aligned_cols=22  Identities=32%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..++|+|++|+|||||+++|..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            3588999999999999999985

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.07  E-value=0.00028  Score=49.41  Aligned_cols=21  Identities=33%  Similarity=0.699  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++++|++|+|||||++.+.+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            478999999999999998875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.07  E-value=0.00031  Score=51.85  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|+.|||||||++.+.+-
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999988864

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=97.06  E-value=0.00031  Score=52.17  Aligned_cols=21  Identities=38%  Similarity=0.634  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|+.|||||||++.+.+-
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999988864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.06  E-value=0.00033  Score=49.62  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++|||||||++.|.+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=97.06  E-value=0.00033  Score=50.06  Aligned_cols=21  Identities=29%  Similarity=0.491  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999998864

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.06  E-value=0.00032  Score=48.16  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.|+++|++||||||+++.|..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.05  E-value=0.00034  Score=49.29  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++||||||+.+.|..
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.04  E-value=0.00037  Score=50.60  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988763

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.04  E-value=0.00045  Score=47.84  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|++.|++||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999863

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=97.04  E-value=0.00034  Score=51.72  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            3689999999999999998864

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.03  E-value=0.0004  Score=48.22  Aligned_cols=22  Identities=23%  Similarity=0.234  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|++||||||+.+.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.02  E-value=0.00048  Score=47.95  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|++.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999864

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=97.02  E-value=0.00036  Score=51.34  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999998864

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.02  E-value=0.00038  Score=49.85  Aligned_cols=22  Identities=32%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++||||||+.+.|..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=97.02  E-value=0.00044  Score=52.03  Aligned_cols=23  Identities=39%  Similarity=0.375  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .++++|++|||||||+|.|.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            46899999999999999998643

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.01  E-value=0.00036  Score=49.14  Aligned_cols=22  Identities=32%  Similarity=0.395  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.|+|+|++||||||+.+.|..
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999998864

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=97.01  E-value=0.00041  Score=50.56  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.01  E-value=0.00049  Score=50.14  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..++|+|.|++||||||+.+.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999863

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.01  E-value=0.00048  Score=48.44  Aligned_cols=23  Identities=30%  Similarity=0.674  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|.|++||||||+.+.|..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.01  E-value=0.00038  Score=51.37  Aligned_cols=22  Identities=36%  Similarity=0.428  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            3689999999999999988864

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.00  E-value=0.00042  Score=50.68  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.00  E-value=0.0005  Score=48.55  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.|+++|++||||||+.+.|..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999975

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.00  E-value=0.00044  Score=47.06  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            1 MRIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             CEEEEESCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.00  E-value=0.00044  Score=49.93  Aligned_cols=22  Identities=32%  Similarity=0.616  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.99  E-value=0.00039  Score=50.58  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999998864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.98  E-value=0.00038  Score=51.32  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.+.+
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            479999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.98  E-value=0.00054  Score=47.66  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+.+.|..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998863

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.98  E-value=0.00041  Score=50.97  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3689999999999999998864

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.97  E-value=0.00042  Score=50.70  Aligned_cols=22  Identities=50%  Similarity=0.678  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3689999999999999988864

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.97  E-value=0.00032  Score=48.49  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus        40 ~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           40 GLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             EEEECCSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998875

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.97  E-value=0.00044  Score=50.65  Aligned_cols=22  Identities=41%  Similarity=0.471  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999999874

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.97  E-value=0.00043  Score=52.16  Aligned_cols=21  Identities=33%  Similarity=0.393  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|+|||||++.|.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            578999999999999998874

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.97  E-value=0.00051  Score=47.57  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+++|++||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999864

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.96  E-value=0.00049  Score=49.39  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.|+|.|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            1 MNILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998863

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.96  E-value=0.00049  Score=49.15  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|+|++||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.96  E-value=0.00047  Score=51.02  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999874

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.95  E-value=0.00049  Score=50.71  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4789999999999999998864

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.95  E-value=0.00043  Score=52.39  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|+|++|||||||++.|.+
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHh
Confidence            4689999999999999998875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.94  E-value=0.00039  Score=49.47  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.94  E-value=0.00053  Score=49.28  Aligned_cols=23  Identities=26%  Similarity=0.588  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|++||||||+.+.|..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998863

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.93  E-value=0.00052  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999988864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.93  E-value=0.00028  Score=50.86  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=14.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHh-cC
Q 043946            5 KLLLIGDSGVGKSCLLLRFA-DD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~-~~   26 (198)
                      -++|+|++|||||||++.|. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            47899999999999999998 53

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.92  E-value=0.00063  Score=48.03  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.92  E-value=0.00054  Score=50.79  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.91  E-value=0.00051  Score=50.41  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999998864

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.91  E-value=0.00049  Score=49.27  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++|+|++|||||||++.+.+.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999863

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.90  E-value=0.00028  Score=48.62  Aligned_cols=21  Identities=33%  Similarity=0.553  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.|.+
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999875

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.89  E-value=0.00053  Score=50.70  Aligned_cols=22  Identities=45%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3689999999999999998764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.89  E-value=0.00055  Score=47.02  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +|+|+|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999998863

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.88  E-value=0.00066  Score=50.76  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..-|++.|++||||||+.+.|..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999964

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.87  E-value=0.00053  Score=49.06  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|+|++||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998863

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.85  E-value=0.00067  Score=48.41  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -+.|+|+|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.85  E-value=0.00067  Score=50.04  Aligned_cols=22  Identities=32%  Similarity=0.607  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998874

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.85  E-value=0.00053  Score=53.00  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -+++|+|++|+|||||++.|.+.
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998763

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.84  E-value=0.00076  Score=46.82  Aligned_cols=23  Identities=26%  Similarity=0.562  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..|+++|++||||||+.+.|...
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            46999999999999999988653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.82  E-value=0.00063  Score=50.50  Aligned_cols=21  Identities=38%  Similarity=0.623  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            899999999999999999863

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.82  E-value=0.00096  Score=47.13  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ...|+|+|++||||||+++.|...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            356899999999999999998753

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.81  E-value=0.00074  Score=46.57  Aligned_cols=21  Identities=43%  Similarity=0.661  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|++.|++|+||||+.+.|..
T Consensus        13 ~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           13 NILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHH
Confidence            589999999999999998863

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.81  E-value=0.00078  Score=46.22  Aligned_cols=22  Identities=18%  Similarity=0.308  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+.|+|++|+|||||+++|..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999875

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.81  E-value=0.00072  Score=49.56  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999863

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.80  E-value=0.0009  Score=50.79  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++-|+|+|++|||||||++.|..
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999988853

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.80  E-value=0.00082  Score=47.19  Aligned_cols=24  Identities=13%  Similarity=0.146  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ...|+|.|.+||||||+++.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            357999999999999999998753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.80  E-value=0.00081  Score=46.76  Aligned_cols=21  Identities=19%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.79  E-value=0.00084  Score=46.80  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998863

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.79  E-value=0.001  Score=46.74  Aligned_cols=23  Identities=17%  Similarity=0.430  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+.+.|..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998863

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.79  E-value=0.00092  Score=48.22  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|+|.+||||||+.+.|..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998864

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.78  E-value=0.00073  Score=52.06  Aligned_cols=22  Identities=45%  Similarity=0.644  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      ++++|++|||||||++.+.+-.
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            6899999999999999988743

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.77  E-value=0.00086  Score=46.86  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.76  E-value=0.00056  Score=51.58  Aligned_cols=21  Identities=43%  Similarity=0.605  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.+.+
T Consensus        82 ~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTT
T ss_pred             EEEEECCCCchHHHHHHHHHc
Confidence            479999999999999988875

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.76  E-value=0.00083  Score=50.28  Aligned_cols=22  Identities=32%  Similarity=0.616  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999988764

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.76  E-value=0.00033  Score=49.63  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999864

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.76  E-value=0.00085  Score=48.01  Aligned_cols=20  Identities=20%  Similarity=0.527  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|+|+|||||+|..+.|..
T Consensus        32 I~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56799999999999988864

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.75  E-value=0.0012  Score=46.34  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=21.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ....|+|.|.+||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3567999999999999999998764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.75  E-value=0.001  Score=48.36  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|+.|||||||++.|.+
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.74  E-value=0.00075  Score=46.69  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999988864

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.74  E-value=0.00078  Score=50.77  Aligned_cols=84  Identities=14%  Similarity=0.078  Sum_probs=45.8

Q ss_pred             EEEEEeCCCccccccc------------ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 043946           53 KLQIWDTAGQERFRTI------------TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL  120 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~------------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~  120 (198)
                      .+.+.|++|.......            -.......+.++++.|+.......   .....+....  + ..++++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~~---~~~~~~~~~~--~-~t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGL---EQAKKFHEAV--G-LTGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHH---HHHHHHHHHH--C-CSEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHHH---HHHHHHHHHc--C-CcEEEEECCcc
Confidence            3568899985422110            112234567788899987654322   2222232221  2 34678899986


Q ss_pred             CCCCcCCHHHHHHHHHHhCCcEEEEe
Q 043946          121 TDKKVVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                      ...    ...+.......+.++..+.
T Consensus       260 ~a~----gg~~l~i~~~~~~pi~~ig  281 (304)
T 1rj9_A          260 TAK----GGVLIPIVRTLKVPIKFVG  281 (304)
T ss_dssp             SCC----CTTHHHHHHHHCCCEEEEE
T ss_pred             ccc----ccHHHHHHHHHCCCeEEEe
Confidence            422    2234456666788876665

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.73  E-value=0.00077  Score=51.94  Aligned_cols=21  Identities=38%  Similarity=0.563  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|+|++|||||||++.+.+
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999875

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.73  E-value=0.00059  Score=45.84  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||+|++.+.+
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999875

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.72  E-value=0.0011  Score=46.66  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++|||||||++.|..
T Consensus        23 ~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           23 LVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998864

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.72  E-value=0.0012  Score=45.87  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.72  E-value=0.00087  Score=51.58  Aligned_cols=21  Identities=38%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            689999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.72  E-value=0.00096  Score=47.14  Aligned_cols=23  Identities=17%  Similarity=0.036  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35699999999999999999864

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.72  E-value=0.00097  Score=46.25  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+++|.+||||||+++.|..
T Consensus        14 ~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           14 IVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            5689999999999999998864

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.71  E-value=0.00091  Score=51.60  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|+|++|||||||++.+.+-
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHhcC
Confidence            689999999999999988864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.71  E-value=0.0018  Score=43.00  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|++.|++|+|||++++.+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            3589999999999999987764

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.71  E-value=0.00088  Score=48.91  Aligned_cols=21  Identities=43%  Similarity=0.707  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998863

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.70  E-value=0.00077  Score=49.34  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+++|++||||||+.+.|..
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999864

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.70  E-value=0.00093  Score=51.53  Aligned_cols=21  Identities=43%  Similarity=0.613  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHHCC
Confidence            689999999999999998864

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.70  E-value=0.0012  Score=49.40  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      ...|+|.|++|||||||++.|.
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999998875

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.70  E-value=0.0011  Score=46.96  Aligned_cols=23  Identities=22%  Similarity=0.198  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+++.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999999874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.69  E-value=0.00096  Score=51.49  Aligned_cols=21  Identities=48%  Similarity=0.653  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCchHHHHHHHHhcC
Confidence            689999999999999998864

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.68  E-value=0.00098  Score=51.74  Aligned_cols=21  Identities=43%  Similarity=0.612  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHHcC
Confidence            689999999999999999864

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.68  E-value=0.0012  Score=48.49  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|++.|.+||||||+.+.|..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            35689999999999999999874

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.67  E-value=0.00094  Score=50.28  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++++|++||||||+++.|.+
T Consensus       102 vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          102 VIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999998853

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.67  E-value=0.0013  Score=46.86  Aligned_cols=23  Identities=39%  Similarity=0.550  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            56799999999999999999864

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.67  E-value=0.0011  Score=45.32  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.66  E-value=0.0011  Score=45.60  Aligned_cols=21  Identities=38%  Similarity=0.729  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||+|++.+..
T Consensus        45 ~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.66  E-value=0.00096  Score=50.37  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++|||||||++.|.+
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.65  E-value=0.0011  Score=51.43  Aligned_cols=21  Identities=43%  Similarity=0.578  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHHcC
Confidence            689999999999999998764

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.65  E-value=0.00099  Score=50.82  Aligned_cols=22  Identities=18%  Similarity=0.451  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|+|||||++.+.+.
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.65  E-value=0.001  Score=51.50  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCcHHHHHHHHHHcC
Confidence            689999999999999998864

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.64  E-value=0.0016  Score=45.70  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=21.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+.|++.|.+||||||+.+.|..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.64  E-value=0.001  Score=51.41  Aligned_cols=22  Identities=23%  Similarity=0.608  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|+|||||++.+.+.
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999999863

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.63  E-value=0.0013  Score=48.14  Aligned_cols=21  Identities=33%  Similarity=0.362  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHh
Q 043946            4 FKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~   24 (198)
                      ..|+|+|++||||||+++.|.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999887

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.60  E-value=0.001  Score=51.54  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.+.+
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999875

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.60  E-value=0.00079  Score=46.41  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=15.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999864

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.59  E-value=0.0009  Score=48.22  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .-|+|.|+.||||||+++.|.+.
T Consensus        21 ~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           21 FTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45899999999999999988764

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.58  E-value=0.0014  Score=47.33  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|.|++||||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998863

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.58  E-value=0.00088  Score=51.44  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        29 ~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           29 FVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEECCCCccHHHHHHHHHcC
Confidence            689999999999999998864

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.57  E-value=0.0013  Score=45.23  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|++.|.+||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.56  E-value=0.0017  Score=48.64  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +..|+++|.+||||||+.+.|..
T Consensus         2 ~~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            2 KKIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999875

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.54  E-value=0.0013  Score=48.72  Aligned_cols=22  Identities=41%  Similarity=0.658  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++++|++|+|||||++.+.+.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3899999999999999998863

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.54  E-value=0.0013  Score=50.24  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999999875

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=96.54  E-value=0.0016  Score=50.27  Aligned_cols=22  Identities=41%  Similarity=0.644  Sum_probs=20.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHH
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l   23 (198)
                      ..+||+++|.++||||||++.+
T Consensus        32 ~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           32 RLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CccEEEEECCCCCcHHHHHHHH
Confidence            4689999999999999999886

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.53  E-value=0.0014  Score=46.76  Aligned_cols=20  Identities=35%  Similarity=0.699  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|++|+|||||++.+..
T Consensus        26 ~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           26 IALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            68999999999999999874

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.51  E-value=0.0013  Score=51.75  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++|+|++|||||||++.+++.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            3799999999999999998763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.51  E-value=0.0018  Score=44.00  Aligned_cols=21  Identities=43%  Similarity=0.523  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|.+||||||+.+.|..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998853

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.51  E-value=0.0017  Score=46.79  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..++..|+|+|||||||+.+.|..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            468999999999999999988853

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.51  E-value=0.0019  Score=47.16  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|+|.|++||||||+.+.|..
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999998864

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.51  E-value=0.0014  Score=51.04  Aligned_cols=21  Identities=43%  Similarity=0.676  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|||||||++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            378999999999999998876

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.49  E-value=0.0015  Score=52.84  Aligned_cols=22  Identities=18%  Similarity=0.298  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.+.+.
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999999863

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.48  E-value=0.0017  Score=44.74  Aligned_cols=20  Identities=25%  Similarity=0.260  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      .+|+|+.|+|||||++.+..
T Consensus        29 ~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            58999999999999999853

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.47  E-value=0.0011  Score=50.17  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++|.|+.|||||||++.|.+.
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            4689999999999999999864

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.47  E-value=0.0019  Score=48.00  Aligned_cols=22  Identities=45%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      .+.|+|.|.+||||||+.+.|.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999886

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.47  E-value=0.0051  Score=48.73  Aligned_cols=22  Identities=23%  Similarity=0.217  Sum_probs=18.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      ..-|.|+|+.++|||+|+|.|+
T Consensus        67 v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           67 VVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCchhHHHHHHH
Confidence            3457799999999999999654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.45  E-value=0.0016  Score=50.24  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++||||||+++.|.+
T Consensus       159 vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          159 VIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCChHHHHHHHHHh
Confidence            588999999999999998853

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.44  E-value=0.00088  Score=51.57  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        34 ~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           34 FGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            689999999999999998874

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.44  E-value=0.0017  Score=47.48  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||+|++.+..
T Consensus        47 ~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHH
Confidence            589999999999999999875

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.44  E-value=0.0017  Score=46.02  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|++.|.+||||||+.+.|..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.42  E-value=0.0023  Score=46.12  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|.|++||||||+++.|..
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.42  E-value=0.0016  Score=47.63  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++||||||+.+.|..
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.41  E-value=0.0017  Score=52.07  Aligned_cols=92  Identities=17%  Similarity=0.160  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCccccccc-------ccc----c-ccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTI-------TSS----Y-YRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~-------~~~----~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++||+|.......       ...    . ....+-++||+|+.......   .....+....  + ...+++||.|
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~al---~~ak~f~~~~--~-itgvIlTKLD  449 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAV---SQAKLFHEAV--G-LTGITLTKLD  449 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHHHH---HHHHHHHHHT--C-CSEEEEECGG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHHHH---HHHHHHHhhc--C-CCEEEEEcCC
Confidence            34778999996422110       011    1 12356789999987653221   2222233322  2 2356889999


Q ss_pred             CCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      ...    ....+..+...++.++..+.  +|.++++
T Consensus       450 ~ta----kgG~~lsi~~~~~~PI~fig--~Ge~vdD  479 (503)
T 2yhs_A          450 GTA----KGGVIFSVADQFGIPIRYIG--VGERIED  479 (503)
T ss_dssp             GCS----CCTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             Ccc----cccHHHHHHHHHCCCEEEEe--cCCChhh
Confidence            531    23445667777788876643  4444443

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.41  E-value=0.0017  Score=48.56  Aligned_cols=20  Identities=30%  Similarity=0.469  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|++|+|||||++.+..
T Consensus        38 ~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           38 IMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            68999999999999998875

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.40  E-value=0.0015  Score=52.07  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.|.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5899999999999999998753

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.39  E-value=0.0016  Score=44.62  Aligned_cols=21  Identities=38%  Similarity=0.683  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|++|+|||+|++.+..
T Consensus        45 ~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            579999999999999998864

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.37  E-value=0.002  Score=45.70  Aligned_cols=21  Identities=24%  Similarity=0.208  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            368999999999999999987

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.36  E-value=0.0021  Score=46.04  Aligned_cols=22  Identities=18%  Similarity=0.252  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.+++.|++|+|||+|++.+..
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998874

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.34  E-value=0.0021  Score=49.30  Aligned_cols=22  Identities=36%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++++|++|+|||||++.+.+.
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999875

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.33  E-value=0.0021  Score=46.28  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -++|+|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            3689999999999999999864

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.31  E-value=0.0023  Score=44.91  Aligned_cols=22  Identities=45%  Similarity=0.581  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.+++.|++|+|||+|++.+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.26  E-value=0.002  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|+||+|||+++.++..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999888864

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.24  E-value=0.0024  Score=49.58  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            579999999999999999875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.22  E-value=0.0029  Score=42.03  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..|++.|++|+|||++.+.+...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            45899999999999999988754

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=96.21  E-value=0.0032  Score=42.18  Aligned_cols=19  Identities=47%  Similarity=0.651  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|+|+.|+||||+++++.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4799999999999999974

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.20  E-value=0.003  Score=44.47  Aligned_cols=23  Identities=43%  Similarity=0.667  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      ..|+|+|++|+|||+|...|...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999999854

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.16  E-value=0.0028  Score=47.30  Aligned_cols=22  Identities=41%  Similarity=0.480  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.+++.|++|+|||++++.+..
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            3689999999999999999875

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.14  E-value=0.0029  Score=46.86  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .+++.|++|+|||+|++.+...
T Consensus        53 ~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           53 GILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999999753

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.13  E-value=0.003  Score=47.28  Aligned_cols=22  Identities=27%  Similarity=0.199  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-+++.|+||+|||+|++.+..
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3567889999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.13  E-value=0.0031  Score=45.99  Aligned_cols=21  Identities=38%  Similarity=0.537  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||++++.+..
T Consensus        41 ~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           41 GALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.12  E-value=0.0034  Score=51.09  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|||||||++.+.+.
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.12  E-value=0.0033  Score=44.82  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998864

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=96.10  E-value=0.0039  Score=47.97  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHh
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~   24 (198)
                      +.+||+++|..+|||||+++.+.
T Consensus         8 ~~~k~lllG~~~sGKsT~~kq~~   30 (354)
T 2xtz_A            8 HIRKLLLLGAGESGKSTIFKQIK   30 (354)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CceeEEEECCCCCcHHHHHHHHH
Confidence            46799999999999999998873

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.10  E-value=0.0035  Score=44.11  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||++++.+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999998874

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.10  E-value=0.0031  Score=47.32  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|++.|++|+|||+|++.+...
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCcCHHHHHHHHHHH
Confidence            4899999999999999998863

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.09  E-value=0.0032  Score=49.59  Aligned_cols=22  Identities=23%  Similarity=0.304  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+++|++||||||+.++|..
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.09  E-value=0.0034  Score=49.78  Aligned_cols=22  Identities=45%  Similarity=0.511  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++|+|++|+|||||++.+.+.
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999998864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=96.07  E-value=0.0032  Score=50.39  Aligned_cols=21  Identities=33%  Similarity=0.479  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            368999999999999998853

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.04  E-value=0.0036  Score=46.34  Aligned_cols=21  Identities=38%  Similarity=0.479  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++|+|++|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            368999999999999998874

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=96.02  E-value=0.0038  Score=51.32  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhc
Confidence            5799999999999999988763

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.98  E-value=0.0038  Score=46.81  Aligned_cols=85  Identities=15%  Similarity=0.079  Sum_probs=47.1

Q ss_pred             EEEEEEeCCCccccccc----cccccc--CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTI----TSSYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      ..+.|+||+|.......    ....+.  ..+.+++|+|++..  ...+..+...+.   ..+ ..-+++||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~---~l~-~~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFS---SVP-VNQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTS---SSC-CCEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHh---cCC-CCEEEEeCCCcccc--
Confidence            46889999996543221    111222  36788999987643  223333332222   112 23456799997532  


Q ss_pred             CCHHHHHHHHHHhCCcEEEEe
Q 043946          126 VSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~S  146 (198)
                        ...+.......++++..++
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2355566677787765544

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.95  E-value=0.0051  Score=43.16  Aligned_cols=21  Identities=33%  Similarity=0.357  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.95  E-value=0.0056  Score=46.41  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|+|+|++|||||||...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.94  E-value=0.0057  Score=50.47  Aligned_cols=22  Identities=41%  Similarity=0.561  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+.
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.94  E-value=0.0056  Score=49.81  Aligned_cols=21  Identities=38%  Similarity=0.659  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+.
T Consensus        28 ~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           28 LGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            689999999999999998864

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.92  E-value=0.0044  Score=50.94  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.92  E-value=0.0041  Score=49.02  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|++.|+||+|||+|++++.+
T Consensus       208 GiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999999985

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.91  E-value=0.0057  Score=44.09  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|+|++|+||||+.+.|..
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999988864

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.90  E-value=0.0042  Score=46.96  Aligned_cols=21  Identities=29%  Similarity=0.559  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -+++.|++|+|||+|++.+..
T Consensus        39 ~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999998875

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.89  E-value=0.0049  Score=44.39  Aligned_cols=20  Identities=35%  Similarity=0.539  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|.|++|+|||||+..+..
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999877753

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.0045  Score=48.90  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|++.||||+|||+|++++.+.
T Consensus       217 GvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          217 GALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eeEEECcCCCCHHHHHHHHHHH
Confidence            5899999999999999999863

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.88  E-value=0.0047  Score=46.56  Aligned_cols=86  Identities=24%  Similarity=0.229  Sum_probs=48.7

Q ss_pred             EEEEEEeCCCccccccc-----------ccc-cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           52 VKLQIWDTAGQERFRTI-----------TSS-YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~-----------~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                      +.+.++|+||.......           ... .-...+.+++|+|+....  ..+.. ...+....  + ..-+|+||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~~-a~~~~~~~--~-i~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQ-AKIFKEAV--N-VTGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHH-HHHHHHHS--C-CCEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHHH-HHHHHhcC--C-CCEEEEeCCC
Confidence            35889999995322110           000 123478999999987432  22222 22232221  2 3356789999


Q ss_pred             CCCCCcCCHHHHHHHHHHhCCcEEEEec
Q 043946          120 LTDKKVVSYETAKAFADEIGIPFMETSA  147 (198)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~S~  147 (198)
                      ...    ....+.++....+.|+..++.
T Consensus       261 ~~~----~gG~~l~~~~~~~~Pi~~i~~  284 (306)
T 1vma_A          261 GTA----KGGITLAIARELGIPIKFIGV  284 (306)
T ss_dssp             GCS----CTTHHHHHHHHHCCCEEEEEC
T ss_pred             Ccc----chHHHHHHHHHHCCCEEEEeC
Confidence            632    234467777888988877654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.87  E-value=0.0049  Score=47.05  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||||...|..
T Consensus         9 lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCcCcHHHHHHHHHH
Confidence            589999999999999998864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.87  E-value=0.005  Score=46.08  Aligned_cols=21  Identities=29%  Similarity=0.646  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||++++.+..
T Consensus        69 ~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           69 HMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999987653

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.86  E-value=0.005  Score=47.61  Aligned_cols=19  Identities=32%  Similarity=0.525  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|+|+.|+|||||++.+.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4699999999999999975

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.83  E-value=0.0047  Score=47.48  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|++|+|||||++.+..
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999875

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.83  E-value=0.0063  Score=42.12  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|+|.++||||+|..+|...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            789999999999999999854

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.82  E-value=0.0073  Score=49.86  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|+.|+|||||++.+.+.
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4789999999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.82  E-value=0.0048  Score=46.79  Aligned_cols=22  Identities=41%  Similarity=0.613  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|++.|++|+|||+|++.+...
T Consensus        47 ~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           47 GILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHH
Confidence            5899999999999999999864

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.82  E-value=0.0058  Score=46.58  Aligned_cols=21  Identities=43%  Similarity=0.681  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||+|...|..
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999874

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.81  E-value=0.007  Score=43.74  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..-|++.|..||||||+++.|..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35689999999999999999874

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.81  E-value=0.0041  Score=45.67  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...|+|.|.+||||||+++.|..
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999988864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.81  E-value=0.005  Score=48.67  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.||||+|||+|++++.+.
T Consensus       217 GvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          217 GVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999999863

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.80  E-value=0.0056  Score=45.71  Aligned_cols=21  Identities=43%  Similarity=0.779  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||++++.+..
T Consensus        52 ~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           52 NILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.79  E-value=0.0041  Score=47.53  Aligned_cols=20  Identities=35%  Similarity=0.602  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998865

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.79  E-value=0.0064  Score=46.66  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      ..+|+++|++|+||||+.+.|.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHH
Confidence            3579999999999999998764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.79  E-value=0.0056  Score=45.07  Aligned_cols=24  Identities=33%  Similarity=0.558  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .-.+++.|++|+|||+|++.+...
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            346899999999999999998753

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.79  E-value=0.0051  Score=50.02  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|+.|||||||++.+.+-
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.78  E-value=0.006  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .++|+|+.|+|||||++.+.+..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998743

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.77  E-value=0.0059  Score=46.08  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||+|...|..
T Consensus         5 ~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHHH
Confidence            478999999999999999974

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.77  E-value=0.0044  Score=51.08  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            579999999999999998876

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.76  E-value=0.0052  Score=46.85  Aligned_cols=21  Identities=33%  Similarity=0.684  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++.|++|+||||+++.+...
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998753

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.75  E-value=0.0055  Score=45.89  Aligned_cols=21  Identities=38%  Similarity=0.654  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||++++.+..
T Consensus        49 ~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           49 SFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             EEEEESCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            589999999999999998865

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.73  E-value=0.0056  Score=47.82  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.||||+|||.|++++.+.
T Consensus       184 GvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          184 GVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CEEEESCSSSSHHHHHHHHHHH
T ss_pred             ceEEeCCCCCCHHHHHHHHHHh
Confidence            4899999999999999999863

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.70  E-value=0.0057  Score=46.98  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -+.|+|++|+|||||+..+...
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999999864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.70  E-value=0.0069  Score=41.61  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|++|+||||+.-.|..+
T Consensus        18 gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4899999999999999999863

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.70  E-value=0.0086  Score=49.42  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~   27 (198)
                      .++|+|+.|+|||||++.+.+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998743

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.69  E-value=0.006  Score=47.07  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|.|++|+|||+|++.+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998753

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.68  E-value=0.0038  Score=51.29  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            478999999999999987765

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.66  E-value=0.006  Score=46.17  Aligned_cols=22  Identities=41%  Similarity=0.587  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .+++.|++|+|||+|++.+...
T Consensus        53 ~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           53 GILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999998753

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.64  E-value=0.0072  Score=45.50  Aligned_cols=21  Identities=24%  Similarity=0.596  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|++|||||+|...|..
T Consensus        12 ~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            478999999999999999874

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.63  E-value=0.0074  Score=42.96  Aligned_cols=22  Identities=32%  Similarity=0.318  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|.|.+||||||+++.|..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~   28 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAE   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            3588999999999999998853

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.60  E-value=0.005  Score=50.67  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++|++|+|||||++.+.+
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            579999999999999987765

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.007  Score=49.95  Aligned_cols=22  Identities=32%  Similarity=0.656  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      ++|+|+.|+|||||++.+.+-.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            6899999999999999998743

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.55  E-value=0.0071  Score=46.05  Aligned_cols=20  Identities=30%  Similarity=0.674  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +++.|++|+|||++++.+..
T Consensus        61 ~ll~G~~G~GKT~la~~la~   80 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTK   80 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998875

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.55  E-value=0.13  Score=36.87  Aligned_cols=87  Identities=14%  Similarity=0.153  Sum_probs=57.9

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.++|+|+.-.  ......+..+|.+|+++..+ ..++..+...++.+.........+.+|+|+.+....  ...+  
T Consensus       119 yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~--~~~~--  191 (245)
T 3ea0_A          119 YDYIIVDFGASID--HVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNSR--ITSD--  191 (245)
T ss_dssp             CSEEEEEEESSCC--TTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTT--SCHH--
T ss_pred             CCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCCC--CCHH--
Confidence            4588999987542  23445677899999999875 566677777777776554334568899999996432  2333  


Q ss_pred             HHHHHHhCCcEEEEe
Q 043946          132 KAFADEIGIPFMETS  146 (198)
Q Consensus       132 ~~~~~~~~~~~~~~S  146 (198)
                       .+.+.++.+++..-
T Consensus       192 -~~~~~~~~~v~~~i  205 (245)
T 3ea0_A          192 -EIEKVIGRPISKRI  205 (245)
T ss_dssp             -HHHHHHTSCEEEEE
T ss_pred             -HHHHHhCCCeEEEC
Confidence             34445677766543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.53  E-value=0.0076  Score=46.28  Aligned_cols=21  Identities=29%  Similarity=0.667  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||+|++.+..
T Consensus        72 ~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           72 AVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999874

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.52  E-value=0.0078  Score=42.68  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+.|++.|++||||||+.+.|..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999988854

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.51  E-value=0.006  Score=43.89  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=16.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|.|.+||||||+++.|..
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.51  E-value=0.0085  Score=42.25  Aligned_cols=19  Identities=47%  Similarity=0.651  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|+|+.|+||||+++++.
T Consensus        26 ~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            4789999999999999874

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.51  E-value=0.003  Score=46.33  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+|||+|++.+..
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999999875

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=95.48  E-value=0.0078  Score=46.29  Aligned_cols=22  Identities=41%  Similarity=0.587  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|++.|++|+|||+|++.+...
T Consensus        86 ~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           86 GILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.48  E-value=0.0077  Score=47.38  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|+||+|||+|++++.+.
T Consensus       218 GvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          218 GVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             EEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCceECCCCchHHHHHHHHHHH
Confidence            5899999999999999999863

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.46  E-value=0.0057  Score=49.90  Aligned_cols=22  Identities=41%  Similarity=0.597  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.|+|+|++|||||||++.|.+
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHH
Confidence            4689999999999999999875

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.42  E-value=0.0069  Score=46.59  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|++|+|||+|++.+..
T Consensus        46 ~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           46 NALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CEEECBCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.41  E-value=0.0095  Score=43.13  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|.|.+||||||+++.|..
T Consensus        28 ~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             CEEEEEESTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998863

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.41  E-value=0.0079  Score=49.01  Aligned_cols=21  Identities=43%  Similarity=0.567  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -++++|++|+|||||++.+..
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.38  E-value=0.0048  Score=46.10  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=16.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+-|+|.|++||||||+.+.|..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999988753

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.37  E-value=0.0088  Score=48.49  Aligned_cols=19  Identities=37%  Similarity=0.665  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      ++|+|++|||||||++.++
T Consensus        42 ~~l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           42 TLVSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.35  E-value=0.0093  Score=45.27  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .+++.|++|+|||+|++.+...
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            5899999999999999998653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	198
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-60
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-56
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-56
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-54
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	7e-54
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-51
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	4e-51
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	8e-51
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	6e-50
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-48
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	1e-48
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	6e-48
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-45
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	8e-44
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	8e-42
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-41
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	9e-41
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	6e-40
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	8e-39
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	4e-38
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-37
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-37
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-37
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	3e-37
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-37
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	5e-37
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-36
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-36
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	4e-35
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	7e-35
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-33
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-33
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-33
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-32
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	3e-32
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	4e-32
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	7e-32
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	6e-31
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-30
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-28
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	1e-28
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-28
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-28
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-27
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-27
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	9e-27
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	3e-26
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	6e-25
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-24
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	5e-24
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-23
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-22
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-22
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	1e-20
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	9e-18
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-17
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	8e-12
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	3e-07
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	1e-05
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	5e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	0.001
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	0.002
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	0.003

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  184 bits (469), Expect = 1e-60
 Identities = 102/168 (60%), Positives = 139/168 (82%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIGDSGVGK+C+L RF++D++  ++ISTIG+DFKIRT+E DGK +KLQIWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTIT++YYRGA GI++VYD+T+++SF+N++ W+  I+ +AS +V K+++GNKCD+
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDV 123

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            DK+ VS E  +  A + GI FMETSAK ++NVE AF  +  DIK +M
Sbjct: 124 NDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 171

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  174 bits (442), Expect = 2e-56
 Identities = 136/191 (71%), Positives = 151/191 (79%), Gaps = 4/191 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFKLLLIG+SGVGKSCLLLRF+DD+Y + YISTIGVDFKI+TVE DGKTVKLQIWDTA
Sbjct: 4   DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFRTITSSYYRG+HGIIIVYDVTDQESFN VK WL EIDRYA+  V KLLVGNKCDL
Sbjct: 64  GQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL 123

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNNARPP 180
            DK+VV Y+ AK FAD   +PF+ETSA DS NVE AF+ M   IK  M+ Q      +  
Sbjct: 124 KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKK 183

Query: 181 ----TVQIKGQ 187
                V +KGQ
Sbjct: 184 EDKGNVNLKGQ 194

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  172 bits (437), Expect = 7e-56
 Identities = 91/166 (54%), Positives = 128/166 (77%), Gaps = 1/166 (0%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           + K+LLIGDSGVGKSCLL+RF +D +  S+I+TIG+DFKI+TV+ +GK VKLQIWDTAGQ
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD 122
           ERFRTIT++YYRGA GII+VYD+TD+ +F N+KQW   ++ +A++    LLVGNK D+  
Sbjct: 62  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           +  V+ +  +A A E+GIPF+E+SAK+  NV + F  +   I+ ++
Sbjct: 122 RV-VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  168 bits (425), Expect = 4e-54
 Identities = 86/166 (51%), Positives = 125/166 (75%), Gaps = 1/166 (0%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           D  FK++L+GDSGVGK+CLL+RF D ++L  ++IST+G+DF+ + ++ DG  VKLQ+WDT
Sbjct: 4   DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDT 63

Query: 60  AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
           AGQERFR++T +YYR AH ++++YDVT++ SF+N++ WL EI  YA  +V  +L+GNK D
Sbjct: 64  AGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD 123

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
              ++VV  E  +  A E G+PFMETSAK  LNV+ AF A+  ++K
Sbjct: 124 SAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK 169

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  167 bits (424), Expect = 7e-54
 Identities = 84/164 (51%), Positives = 122/164 (74%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK++LIG++GVGK+CL+ RF    +     +TIGVDF I+TVE +G+ VKLQIWDTA
Sbjct: 3   DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR+IT SYYR A+ +I+ YD+T +ESF  + +WL EI++YAS  V  +LVGNK DL
Sbjct: 63  GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDL 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            +++ VS + A+ F++   + ++ETSAK+S NVE+ F+ +   +
Sbjct: 123 AERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  161 bits (407), Expect = 2e-51
 Identities = 86/171 (50%), Positives = 121/171 (70%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  R+++ DGKT+K QIWDTA
Sbjct: 2   DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA 61

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+R ITS+YYRGA G ++VYD+    ++ NV++WL E+  +A  N+  +LVGNK DL
Sbjct: 62  GQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
              + V  + A+AFA++  + F+ETSA DS NVE+AF  +  +I   ++ +
Sbjct: 122 RHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQK 172

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  160 bits (405), Expect = 4e-51
 Identities = 79/164 (48%), Positives = 110/164 (67%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
            Y+FK ++IGD GVGKSCLL +F +  ++     TIGV+F  R +E  G+ +KLQIWDTA
Sbjct: 2   SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTA 61

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR +T SYYRGA G ++VYD+T + ++N++  WL +     + N   +L+GNK DL
Sbjct: 62  GQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
             ++ V+YE AK FA+E G+ F+E SAK   NVE AF+     I
Sbjct: 122 EAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  159 bits (403), Expect = 8e-51
 Identities = 87/167 (52%), Positives = 127/167 (76%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           DY+FK+L+IG+S VGK+  L R+ADDS+  +++ST+G+DFK++T+ ++ K +KLQIWDTA
Sbjct: 3   DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQER+RTIT++YYRGA G I++YD+T++ESFN V+ W  +I  Y+ +N   LLVGNKCD+
Sbjct: 63  GQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDM 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            D++VVS E  +  AD +G  F E SAKD++NV+Q F  +   I  +
Sbjct: 123 EDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  157 bits (398), Expect = 6e-50
 Identities = 81/170 (47%), Positives = 113/170 (66%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D+LFK L+IG++G GKSCLL +F +  + D    TIGV+F  + +   GK VKLQIWDTA
Sbjct: 3   DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQERFR++T SYYRGA G ++VYD+T +E++N +  WL +    AS+N+  +L GNK DL
Sbjct: 63  GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDL 122

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
              + V++  A  FA E  + F+ETSA    NVE+AF+     I N++ S
Sbjct: 123 DADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIES 172

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  154 bits (390), Expect = 1e-48
 Identities = 74/179 (41%), Positives = 114/179 (63%), Gaps = 11/179 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE----------QDGK 50
           DYL KLL +GDSGVGK+  L R+ D+ +   +I+T+G+DF+ + V               
Sbjct: 3   DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAF 62

Query: 51  TVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENV 109
            V LQ+WDTAGQERFR++T++++R A G ++++D+T Q+SF NV+ W++++      EN 
Sbjct: 63  KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENP 122

Query: 110 NKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L+GNK DL D++ V+   A+  AD+ GIP+ ETSA    NVE+A   +   I  RM
Sbjct: 123 DIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 181

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  154 bits (389), Expect = 1e-48
 Identities = 87/167 (52%), Positives = 120/167 (71%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           YLFK ++IGD+GVGKSCLLL+F D  +   +  TIGV+F  R V  DGK +KLQIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QE FR+IT SYYRGA G ++VYD+T +E+FN++  WL +  +++S N+  +L+GNK DL 
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 121

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
            ++ V  E  +AFA E G+ FMETSAK + NVE+AF+    +I  ++
Sbjct: 122 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 168

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  152 bits (384), Expect = 6e-48
 Identities = 68/161 (42%), Positives = 107/161 (66%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+ +G+  VGK+ L+ RF  DS+ ++Y +TIG+DF  +T+  + +T++LQ+WDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR++  SY R +   ++VYD+T+  SF    +W++++      +V  +LVGNK DL DK
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           + VS E  +  A E+ + F+ETSAK   NV+Q F  + A +
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  146 bits (370), Expect = 1e-45
 Identities = 76/169 (44%), Positives = 104/169 (61%), Gaps = 2/169 (1%)

Query: 1   DYL--FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWD 58
           D L   K+L+IG+SGVGKS LLLRF DD++     +TIGVDFK++T+  DG   KL IWD
Sbjct: 3   DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWD 62

Query: 59  TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKC 118
           TAGQERFRT+T SYYRGA G+I+VYDVT +++F  +  WLNE++ Y + N    ++    
Sbjct: 63  TAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNK 122

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
              + + V       FA +  + F+E SAK    V+ AF  +   I   
Sbjct: 123 IDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  142 bits (357), Expect = 8e-44
 Identities = 63/163 (38%), Positives = 104/163 (63%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y FK++L+G+  VGK+ L+LR+ ++ + D +I+T+G  F  + +   GK V L IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT 121
           QERF  +   YYR ++G I+VYD+TD++SF  VK W+ E+ +     +   +VGNK DL 
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 121

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            ++ VS + A+++A+ +G     TSAK +  +E+ F+ +   +
Sbjct: 122 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 164

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  136 bits (344), Expect = 8e-42
 Identities = 60/163 (36%), Positives = 95/163 (58%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K++++G  GVGKS L ++F   ++++ Y  TI  DF  + +E D     L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
           +F ++   Y +   G I+VY + +Q+SF ++K   ++I R    E V  +LVGNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++ VS    +A A+E G PFMETSAK    V++ F  +   + 
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  135 bits (341), Expect = 2e-41
 Identities = 67/166 (40%), Positives = 98/166 (59%), Gaps = 2/166 (1%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++G  GVGKS L L+F  D +++ Y  T   D   + V  DG+ V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLT 121
           E +  I  +Y+R   G + V+ +T+ ESF     +  +I R    ENV  LLVGNK DL 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
           DK+ VS E AK  AD+  + ++ETSAK   NV++ F  +  +I+ R
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  134 bits (337), Expect = 9e-41
 Identities = 78/162 (48%), Positives = 109/162 (67%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+G+S VGKS L+LRF    + +   STIG  F  +TV  D  TVK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           R+ ++   YYRGA   I+VYD+T++ESF   K W+ E+ R AS N+   L GNK DL +K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           + V ++ A+++AD+  + FMETSAK S+NV + FMA+   + 
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  132 bits (332), Expect = 6e-40
 Identities = 64/168 (38%), Positives = 98/168 (58%), Gaps = 4/168 (2%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             LFK++L+GD GVGKS L+ R+  + +      TIGV+F  + +E DG  V +QIWDTA
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE----NVNKLLVGN 116
           GQERFR++ + +YRG+   ++ + V D +SF N+  W  E   YA      +   +++GN
Sbjct: 64  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 123

Query: 117 KCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           K D+++++V + E      D    P+ ETSAKD+ NV  AF      +
Sbjct: 124 KIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  128 bits (323), Expect = 8e-39
 Identities = 68/163 (41%), Positives = 105/163 (64%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ L+GD+GVGKS ++ RF +DS+  +   TIG  F  +TV+   +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           RFR +   YYRG+   IIVYD+T +E+F+ +K W+ E+ ++   ++   + GNKCDLTD 
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 124

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
           + V    AK +AD I   F+ETSAK+++N+ + F+ ++  I +
Sbjct: 125 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 167

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  128 bits (321), Expect = 4e-38
 Identities = 50/177 (28%), Positives = 82/177 (46%), Gaps = 14/177 (7%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
             + K +++GD  VGK+CLL+ +A+D++ + Y+ T+  D    +V   GK   L ++DTA
Sbjct: 7   ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTA 65

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDL 120
           GQE +  +    Y      +I + V +  SF NVK+      +  + NV  LL+G + DL
Sbjct: 66  GQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDL 125

Query: 121 TDKKV------------VSYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADI 164
            D               +  E  +  A EIG   ++E SA     ++  F      I
Sbjct: 126 RDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 182

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  126 bits (316), Expect = 1e-37
 Identities = 56/163 (34%), Positives = 90/163 (55%), Gaps = 3/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++   + ++D Y  TI   ++ + V    +T  L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDG-ETCLLDILDTAGQE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
            +  +   Y R   G + V+ + + +SF ++ Q+  +I R    ++V  +LVGNKCD   
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD-LA 121

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
            + V    A+  A   GIP++ETSAK    VE AF  +  +I+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  126 bits (316), Expect = 2e-37
 Identities = 52/174 (29%), Positives = 77/174 (44%), Gaps = 14/174 (8%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  +++   YI T+  D     V  DGK V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
            +  +    Y      +I + +    SF NV+       R+   N   +LVG K DL D 
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD 124

Query: 124 KVVS------------YETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADI 164
           K               Y    A A EIG + ++E SA     ++  F      +
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  125 bits (314), Expect = 2e-37
 Identities = 70/163 (42%), Positives = 107/163 (65%), Gaps = 5/163 (3%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           +FK+++IGDS VGK+CL  RF    + D   +TIGVDF+ R V+ DG+ +K+Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 63  ERF-RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDL 120
           ERF +++   YYR  H ++ VYD+T+  SF+++  W+ E  ++  + ++ ++LVGNKCDL
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 121

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDSL---NVEQAFMAM 160
                V  + A+ FAD   +P  ETSAK+     +VE  FM +
Sbjct: 122 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  125 bits (313), Expect = 3e-37
 Identities = 59/164 (35%), Positives = 93/164 (56%), Gaps = 3/164 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++G  GVGKS L ++F    +++ Y  TI  D   + VE D +   L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD 122
           +F  +   Y +   G  +VY +T Q +FN+++    +I R   +E+V  +LVGNKCDL D
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 123 KKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++VV  E  +  A +     F+E+SAK  +NV + F  +   I 
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  125 bits (313), Expect = 4e-37
 Identities = 55/169 (32%), Positives = 85/169 (50%), Gaps = 2/169 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               KL+++G  GVGKS L ++F    ++  Y      D   +    DG   +L I DTA
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTA 62

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCD 119
           GQE F  +   Y R  HG ++V+ + D++SFN V +   +I R    ++   +LVGNK D
Sbjct: 63  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 122

Query: 120 LTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           L  ++ V    A AF     + + E SAK  LNV++AF  +   ++   
Sbjct: 123 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ 171

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  125 bits (313), Expect = 5e-37
 Identities = 44/181 (24%), Positives = 75/181 (41%), Gaps = 14/181 (7%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K +++GD  VGK+CLL+ +  + +   Y+ T+  D    TV   G+   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
            +  +    Y      ++ + V    SF NVK+       +       LLVG + DL D 
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 124 KVV------------SYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
                          + ETA+  A ++  + ++E SA     ++  F             
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEP 182

Query: 171 Q 171
           +
Sbjct: 183 K 183

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  123 bits (309), Expect = 2e-36
 Identities = 65/178 (36%), Positives = 106/178 (59%), Gaps = 4/178 (2%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K++++GDSGVGK+ L+ ++ +  + + Y +TIG DF  + V  D + V +QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKC 118
           ERF+++  ++YRGA   ++V+DVT   +F  +  W +E    AS    EN   +++GNK 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQPAMNN 176
           DL +++V +         +  IP+ ETSAK+++NVEQAF  +  +   +       N 
Sbjct: 122 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE 179

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  123 bits (308), Expect = 2e-36
 Identities = 65/166 (39%), Positives = 99/166 (59%), Gaps = 3/166 (1%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KL+L+G++ VGKS ++LRF  + + ++   TIG  F  + V  +  TVK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT--- 121
           F ++   YYR A   ++VYDVT  +SF   + W+ E+   AS+++   LVGNK D+    
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            ++ V+ E  +  A+E G+ F ETSAK   NV   F+ +   I  +
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  119 bits (299), Expect = 4e-35
 Identities = 54/163 (33%), Positives = 90/163 (55%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           ++L+++G  GVGKS L ++F    ++  Y  TI  D   +    D +  +L I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQE 64

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTD 122
            F  +   Y R   G ++V+ VTD+ SF  + ++  +I R    +    +L+GNK DL  
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH 124

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++ V+ E  +  A ++ + +ME SAK  +NV+QAF  +   I+
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIR 167

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  119 bits (298), Expect = 7e-35
 Identities = 49/171 (28%), Positives = 82/171 (47%), Gaps = 14/171 (8%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL+++GD   GK+CLL+  + D + + Y+ T+  +  +  +E DGK V+L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
            +  +    Y     I++ + +   +S  N+ +      ++   NV  +LVGNK DL + 
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 124 KVV------------SYETAKAFADEIG-IPFMETSAKDSLNVEQAFMAMT 161
           +                E  +  A+ IG   +ME SAK    V + F   T
Sbjct: 122 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMAT 172

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  115 bits (288), Expect = 2e-33
 Identities = 61/166 (36%), Positives = 91/166 (54%), Gaps = 3/166 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +KL+++GD GVGKS L ++F    ++  Y  TI  D  ++  E D +   L + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCDLTD 122
            F  +   Y R   G +IVY VTD+ SF +V ++   I R         +LV NK DL  
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDS-LNVEQAFMAMTADIKNR 167
            + V+ +  K  A +  IP++ETSAKD  LNV++ F  +   I+ +
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  115 bits (289), Expect = 2e-33
 Identities = 48/177 (27%), Positives = 84/177 (47%), Gaps = 15/177 (8%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++GDS  GK+ LL  FA D + ++Y+ T+  +    + E D + ++L +WDT+G   
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-- 122
           +  +    Y  +  ++I +D++  E+ ++V +      +    N   LLVG K DL    
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV 122

Query: 123 ----------KKVVSYETAKAFADEIGI-PFMETSAKDSLN-VEQAFMAMTADIKNR 167
                     +  VSY+     A +IG   ++E SA  S N V   F   T    N+
Sbjct: 123 STLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 179

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  115 bits (288), Expect = 2e-33
 Identities = 53/169 (31%), Positives = 82/169 (48%), Gaps = 3/169 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +++ + G  GVGKS L+LRF   ++ +SYI T+   ++            LQI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDK-SICTLQITDTTGSH 61

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK--LLVGNKCDLT 121
           +F  +        H  I+VY +T ++S   +K    +I     +  +   +LVGNKCD +
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 122 DKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMAS 170
             + V    A+A A      FMETSAK + NV++ F  +    K R  S
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 170

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score =  113 bits (282), Expect = 1e-32
 Identities = 36/166 (21%), Positives = 68/166 (40%), Gaps = 9/166 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G    GK+ +L +        + I T+G + +        K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVET----VTYKNVKFNVWDVGGQD 67

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTD 122
           + R +   YY G  G+I V D  D++  +  +Q L+ I       +   L+  NK DL D
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 123 KKV---VSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
                 +  +       +       + A     + +    +T++ K
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  112 bits (281), Expect = 3e-32
 Identities = 68/172 (39%), Positives = 108/172 (62%), Gaps = 7/172 (4%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTV-KLQIWDTAG 61
           + K++++GDSGVGK+ L+ R+ +D Y   Y +TIG DF  + V  DG  V  +Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 62  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK----LLVGNK 117
           QERF+++  ++YRGA   ++VYDVT+  SF N+K W +E   +A+ N  +    +++GNK
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 118 CDLTDKKVVSYE-TAKAFADEIG-IPFMETSAKDSLNVEQAFMAMTADIKNR 167
            D  + K +  E +A+  A  +G IP   TSAK+++NV+ AF  +      +
Sbjct: 122 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  112 bits (279), Expect = 4e-32
 Identities = 58/160 (36%), Positives = 88/160 (55%), Gaps = 1/160 (0%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           K++++G+  VGKS ++ R+    +   Y  TIGVDF  R ++ + + V+L +WDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
           F  IT +YYRGA   ++V+  TD+ESF  +  W  E       ++   LV NK DL D  
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSW-REKVVAEVGDIPTALVQNKIDLLDDS 122

Query: 125 VVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
            +  E A+  A  + + F  TS K+ LNV + F  +    
Sbjct: 123 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score =  111 bits (279), Expect = 7e-32
 Identities = 36/168 (21%), Positives = 65/168 (38%), Gaps = 9/168 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R      + +   TIG + +        K +KL +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTD 122
             R     YY     +I V D TD++  +   + L+ + +    ++   L+  NK D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 123 KKVVS---YETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
               S    E       +     + +SA     + +    +   IK  
Sbjct: 133 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  108 bits (271), Expect = 6e-31
 Identities = 50/166 (30%), Positives = 78/166 (46%), Gaps = 4/166 (2%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL + G +GVGKS L++RF    ++  Y  T+           D + V ++I DT   +
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTL-ESTYRHQATIDDEVVSMEILDT-AGQ 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLN-EIDRYASENVNKLLVGNKCDLTD 122
                   + R   G ++VYD+TD+ SF  V    N   +    +NV  +LVGNK DL  
Sbjct: 61  EDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH 120

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDS-LNVEQAFMAMTADIKNR 167
            + VS E  +  A E+   F E SA     N+ + F  +  +++ R
Sbjct: 121 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 166

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score =  106 bits (265), Expect = 4e-30
 Identities = 28/164 (17%), Positives = 59/164 (35%), Gaps = 9/164 (5%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           ++L++G    GK+ +L +            T            + K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTD- 122
            R +   Y++   G+I V D  D+E  N  ++ L  +       +   L+  NK DL + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 123 --KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
                ++ +               T A     + +    ++  +
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (256), Expect = 1e-28
 Identities = 51/169 (30%), Positives = 79/169 (46%), Gaps = 3/169 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           +K+LL+G  GVGKS L   F      D   +        R++  DG+   L ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVE--DGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
             R +           +IVY VTD+ SF    +   ++ R   +++V  +LVGNK DL  
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
            + VS +  +A A      F+ETSA    NV+  F  +   I+ R  S+
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 168

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  102 bits (255), Expect = 1e-28
 Identities = 52/163 (31%), Positives = 87/163 (53%), Gaps = 2/163 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K+ ++G   VGKS L ++F +  ++DSY  TI  +   + +  +G+   LQ+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWL-NEIDRYASENVNKLLVGNKCDLTD 122
            +     +Y    +G I+VY VT  +SF  +K      +D      +  +LVGNK DL  
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123

Query: 123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
           ++V+SYE  KA A+     F+E+SAK++      F  +  + +
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE 166

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  102 bits (255), Expect = 2e-28
 Identities = 51/161 (31%), Positives = 85/161 (52%), Gaps = 3/161 (1%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
           FKL+L+GD G GK+  + R     +   Y++T+GV+        +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK 123
           +F  +   YY  A   II++DVT + ++ NV  W  +      EN+  +L GNK D+ D+
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRD-LVRVCENIPIVLCGNKVDIKDR 122

Query: 124 KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           KV     +  F  +  + + + SAK + N E+ F+ +   +
Sbjct: 123 KV--KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score =  102 bits (253), Expect = 2e-28
 Identities = 36/168 (21%), Positives = 63/168 (37%), Gaps = 9/168 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +LL++G    GK+ +L +F  +      + TI           + +  KL IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGE-----DVDTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
             R+   +Y+    G+I V D  D++   + ++ L  +           L+  NK DL  
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 123 KKVVSYETAKAFADEI---GIPFMETSAKDSLNVEQAFMAMTADIKNR 167
               +        D I          SA    ++      +  DI +R
Sbjct: 118 ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score =  100 bits (249), Expect = 2e-27
 Identities = 31/166 (18%), Positives = 65/166 (39%), Gaps = 9/166 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            K++++G    GK+ +L +F+ +  + +  +      +I          +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVI-----NNTRFLMWDIGGQE 70

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNE-IDRYASENVNKLLVGNKCDLTD 122
             R+  ++YY     +I+V D TD+E  +  ++ L + +          L+  NK D+ +
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 123 KKV---VSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
                 +S         +         A     + Q    M + +K
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK 176

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 98.9 bits (245), Expect = 5e-27
 Identities = 38/168 (22%), Positives = 61/168 (36%), Gaps = 9/168 (5%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D   ++LL+G    GK+ LL + A +        T G + K        +  KL +WD  
Sbjct: 14  DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFNIK----SVQSQGFKLNVWDIG 68

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCD 119
           GQ + R    SY+     +I V D  D++ F    Q L E+        V  L+  NK D
Sbjct: 69  GQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQD 128

Query: 120 LTDK---KVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
           L        ++         +        SA     V+     +  ++
Sbjct: 129 LLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 98.3 bits (243), Expect = 9e-27
 Identities = 49/170 (28%), Positives = 82/170 (48%), Gaps = 3/170 (1%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDT 59
           +  ++++LIG+ GVGKS L   FA     +DS    +G D   RT+  DG++  + + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 60  A-GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNK 117
              +     +     +     +IVY +TD+ SF    +   ++ R    E++  +LVGNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
            DL   + VS    +A A      F+ETSA    NV++ F  +   ++ R
Sbjct: 121 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR 170

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 98.1 bits (243), Expect = 3e-26
 Identities = 33/198 (16%), Positives = 62/198 (31%), Gaps = 43/198 (21%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KLLL+G    GKS  + +        S + T G+      ++        ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPFDLQSVIF----RMVDVGGQR 56

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQES-----------FNNVKQWLNEIDRYASENVNKL 112
             R      +     I+ +  +++ +              +   +   I     +N + +
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEIGIPFM--------------------------ETS 146
           L  NK DL ++K++       F +  G                               T 
Sbjct: 117 LFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTC 176

Query: 147 AKDSLNVEQAFMAMTADI 164
           A D+ N+   F A+   I
Sbjct: 177 ATDTENIRFVFAAVKDTI 194

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 94.6 bits (234), Expect = 6e-25
 Identities = 34/177 (19%), Positives = 60/177 (33%), Gaps = 20/177 (11%)

Query: 3   LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ 62
           L K+LL+G    GKS  L +            T G+       + + K V  ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQMRII---HGQDPTKGIHEY----DFEIKNVPFKMVDVGGQ 54

Query: 63  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE-----------NVNK 111
              R      +     I+ +   ++ +      +  N +    +            NV+ 
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 112 LLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           +L  NK DL ++KV        F +  G P      +    + + F     D + R 
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK--FLVECFRGKRRDQQQRP 169

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 91.7 bits (226), Expect = 3e-24
 Identities = 34/168 (20%), Positives = 56/168 (33%), Gaps = 9/168 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            ++L++G  G GK+ +L R            T              K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL-LVGNKCDLTD 122
             R     YY     +I V D  D++     K  L  +          L +  NK D+  
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 123 KKVVS---YETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNR 167
               S            +      +TSA     +++A   +   +K+R
Sbjct: 121 AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.2 bits (225), Expect = 5e-24
 Identities = 37/174 (21%), Positives = 71/174 (40%), Gaps = 13/174 (7%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L ++GD+  GKS L+ RF   SY      T    +  + +  DG+T  + I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY-KKEMLVDGQTHLVLIREEAGAP 63

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRY-----ASENVNKLLVGNKC 118
             +     +   A  +I V+ + D+ SF  V +   ++            +  +   ++ 
Sbjct: 64  DAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 118

Query: 119 DLTDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMAMTADIKNRMASQ 171
             +  +VV    A+A   ++    + ET A   LNV++ F  +   +      Q
Sbjct: 119 SASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ 172

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 89.8 bits (221), Expect = 2e-23
 Identities = 28/164 (17%), Positives = 57/164 (34%), Gaps = 16/164 (9%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
           KLL +G    GK+ LL    +D      ++T+   +   + E     +K   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKND-----RLATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK 124
            R +   Y+   +GI+ + D  D E F+  +  L+ +   A       ++          
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 125 V-----------VSYETAKAFADEIGIPFMETSAKDSLNVEQAF 157
           V           ++   ++    +  +     S        +AF
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 160

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 87.4 bits (215), Expect = 1e-22
 Identities = 40/166 (24%), Positives = 71/166 (42%), Gaps = 8/166 (4%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            +L L+G    GK+  +   A   + +  I T+G + +  T       V +++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGN----VTIKLWDIGGQP 58

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTD 122
           RFR++   Y RG   I+ + D  DQE     K  L+ +      + +  L++GNK DL  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 123 ---KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIK 165
              +K +  +   +   +  I     S K+  N++     +    K
Sbjct: 119 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 87.9 bits (217), Expect = 3e-22
 Identities = 28/180 (15%), Positives = 55/180 (30%), Gaps = 20/180 (11%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
               +LLL+G    GKS ++ +          + T G+       +     V   ++D  
Sbjct: 4   RATHRLLLLGAGESGKSTIVKQMRI----LHVVLTSGIFET----KFQVDKVNFHMFDVG 55

Query: 61  GQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE-----------NV 109
           GQ   R      +     II V   +            N +    +             +
Sbjct: 56  GQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTI 115

Query: 110 NKLLVGNKCDLTDKKVVSYETA-KAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKNRM 168
           + +L  NK DL  +KV++ ++  + +  E         A      +         I++  
Sbjct: 116 SVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEF 175

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 83.1 bits (204), Expect = 1e-20
 Identities = 36/198 (18%), Positives = 65/198 (32%), Gaps = 46/198 (23%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KLLL+G    GKS ++ +         + +  G    I       K +  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKII-----HEAGTG----IVETHFTFKDLHFKMFDVGGQR 53

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-----------WLNEIDRYASENVNKL 112
             R      + G   II    ++D +      +           + +  +     + + +
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEIG--------------------------IPFMETS 146
           L  NK DL ++K+        + +  G                          I    T 
Sbjct: 114 LFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTC 173

Query: 147 AKDSLNVEQAFMAMTADI 164
           A D+ NV+  F A+T  I
Sbjct: 174 ATDTKNVQFVFDAVTDVI 191

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 75.8 bits (185), Expect = 9e-18
 Identities = 27/150 (18%), Positives = 52/150 (34%), Gaps = 6/150 (4%)

Query: 5   KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER 64
            +L +G    GK+ L +R     Y D+  ++I     I  V  +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 65  FRTITSSYYRGAHGIIIVYDVTDQESF-NNVKQWLNEIDRYASENVNK---LLVGNKCDL 120
              +   +   A  ++ V D    +    +V ++L ++   +    N    L+  NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 121 TDKKVVSYETAKAFADEIGIPFMETSAKDS 150
              K       +    E+    +  SA  S
Sbjct: 121 AMAKSAK-LIQQQLEKELNTLRVTRSAAPS 149

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 74.3 bits (181), Expect = 2e-17
 Identities = 31/177 (17%), Positives = 56/177 (31%), Gaps = 21/177 (11%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQE 63
            KL+ +G    GK+ LL    DD       +      ++         +    +D  G  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEELTI-----AGMTFTTFDLGGHI 68

Query: 64  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTD 122
           + R +  +Y    +GI+ + D  D E     K+ L+ +    +  NV  L++GNK D  +
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE 128

Query: 123 KKVVS---------------YETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADI 164
                                  +    +   +     S        + F  M   I
Sbjct: 129 AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 59.6 bits (143), Expect = 8e-12
 Identities = 32/174 (18%), Positives = 56/174 (32%), Gaps = 25/174 (14%)

Query: 2   YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG 61
           Y   +++ G    GK+ LL         DS   T+     +   + DG  V   + D  G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTT----DSVRPTVVSQEPLSAADYDGSGV--TLVDFPG 55

Query: 62  QERFRTITSSYY-----RGAHGIIIVYDVTDQESFNNVKQWLNEI----DRYASENVNKL 112
             + R   S Y           I +V    D +      ++L +I    +      ++ L
Sbjct: 56  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 113 LVGNKCDLTDKKVVSYETAKAFADEI---------GIPFMETSAKDSLNVEQAF 157
           +  NK +L   +  S +   A   EI          +  +E    +    E   
Sbjct: 116 IACNKSELFTARPPS-KIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTL 168

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 46.3 bits (108), Expect = 3e-07
 Identities = 26/159 (16%), Positives = 54/159 (33%), Gaps = 15/159 (9%)

Query: 4   FKLLLIGDSGVGKSCLLLRFA-DDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDT--- 59
            K+++ G    GKS LL   A  ++ + + I+    D     +  DG  + +        
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 60  ---AGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGN 116
                +             A  ++ + D T  ++ +  + W  E        +   +V N
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIW-PEFIARLPAKLPITVVRN 120

Query: 117 KCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ 155
           K D+T +           ++  G   +  SA+    V+ 
Sbjct: 121 KADITGET-------LGMSEVNGHALIRLSARTGEGVDV 152

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.8 bits (100), Expect = 1e-05
 Identities = 16/120 (13%), Positives = 29/120 (24%), Gaps = 7/120 (5%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIR--TVEQDGKTVKLQIWDTAG 61
             + + G++G GKS  +         +   +  GV          +      +  WD  G
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPG 116

Query: 62  QERFRTITSSYYR--GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCD 119
                    +Y      +       ++      N       I            V  K D
Sbjct: 117 IGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMM---KKEFYFVRTKVD 173

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]} Length = 205

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 37.2 bits (85), Expect = 5e-04
 Identities = 23/137 (16%), Positives = 44/137 (32%), Gaps = 9/137 (6%)

Query: 35  TIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNV 94
           T        + ++     ++   D  G E       S      G I+V    +       
Sbjct: 69  TEPSCKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQT 128

Query: 95  KQWLNEIDRYASENVNKLLV-GNKCDLTDKK--VVSYETAKAFADEIG---IPFMETSAK 148
           ++    +       V  L++  NK D+  K+  +  Y   K F        +P +  SA 
Sbjct: 129 REHFVALGII---GVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSAL 185

Query: 149 DSLNVEQAFMAMTADIK 165
             +N++     +   IK
Sbjct: 186 HKINIDSLIEGIEEYIK 202

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 35.9 bits (81), Expect = 0.001
 Identities = 22/165 (13%), Positives = 43/165 (26%), Gaps = 10/165 (6%)

Query: 1   DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTA 60
           D   ++   G S  GKS  L    +   L     T G    I   E       + +    
Sbjct: 14  DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYG 73

Query: 61  GQ-------ERFRTITSSYYRGAHGIIIVYDVTDQESFNN--VKQWLNEIDRYASENVNK 111
                     +++     Y      +  +  + D         +Q +          +  
Sbjct: 74  YAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVL 133

Query: 112 LLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQ 155
           L   +K     +K       +A     G +     S+     V++
Sbjct: 134 LTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDK 178

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

 Score = 35.6 bits (81), Expect = 0.002
 Identities = 18/139 (12%), Positives = 38/139 (27%), Gaps = 16/139 (11%)

Query: 4   FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG-- 61
             +L++G  GVGKS  +     +  +           +   V +      L I DT G  
Sbjct: 33  LTILVMGKGGVGKSSTVNSIIGERVVSIS-PFQSEGPRPVMVSRSRAGFTLNIIDTPGLI 91

Query: 62  ---------QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK- 111
                        ++           ++ V  +      N  K     I     + +   
Sbjct: 92  EGGYINDMALNIIKSFLLDK--TIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNK 149

Query: 112 -LLVGNKCDLTDKKVVSYE 129
            ++       +    + Y+
Sbjct: 150 AIVALTHAQFSPPDGLPYD 168

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 34.6 bits (78), Expect = 0.003
 Identities = 27/169 (15%), Positives = 54/169 (31%), Gaps = 15/169 (8%)

Query: 8   LIGDSGVGKSCLL--LRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ--- 62
           L+G    GKS LL  +  A         +T+  +  +  V ++    +  + D  G    
Sbjct: 6   LVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEE---RFTLADIPGIIEG 62

Query: 63  -ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQW----LNEIDRYASENVNKLLVGNK 117
               + +   + R      ++  V D                     A      L+  NK
Sbjct: 63  ASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNK 122

Query: 118 CDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTADIKN 166
            DL +++ V  +         G+  +  SA     +     A+ A +++
Sbjct: 123 VDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALVRS 169

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	198
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.97
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.93
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.92
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.92
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.92
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.91
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.91
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.91
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.91
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.89
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.88
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.87
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.87
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.87
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.86
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.86
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.85
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.83
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.82
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.8
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.79
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.77
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.75
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.73
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.73
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.73
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.72
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.64
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.61
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.59
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.48
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.41
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.39
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.37
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.35
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.18
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.15
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.0
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.8
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.66
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.54
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.48
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.44
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.42
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.32
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.31
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.17
d1okkd2	207	GTPase domain of the signal recognition particle r	98.15
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.11
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.05
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.89
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.87
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.84
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.77
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.75
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.74
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.72
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.71
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.71
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.71
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.67
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.65
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.65
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.65
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.62
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.56
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.55
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.53
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.5
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.45
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.45
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.39
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.33
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.31
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.31
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.3
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.29
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.29
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.29
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.28
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.26
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.26
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.24
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.22
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.21
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.19
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.18
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.17
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.15
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.14
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.14
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.13
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.13
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.12
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.09
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.08
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.07
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.05
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.04
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.0
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.99
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.99
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.96
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.95
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.94
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.94
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.94
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.92
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.91
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.89
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.88
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.86
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.86
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.85
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.81
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.79
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.77
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.76
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.76
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.74
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.67
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.65
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.65
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.65
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.62
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.58
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.55
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.54
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.51
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.45
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.41
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.39
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.38
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.36
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.36
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.33
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.31
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.26
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.23
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.23
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.11
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.09
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.08
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.99
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.88
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.86
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.8
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.8
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.79
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.77
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.74
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.72
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.69
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.68
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.67
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.58
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.54
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.51
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.47
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.44
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.44
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.43
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.41
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.41
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.38
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.35
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.34
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.21
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	95.18
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.15
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.14
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.1
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.97
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.9
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.82
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	94.74
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.62
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.52
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.43
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.35
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.33
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.3
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.73
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.72
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.59
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.46
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.24
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.15
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.09
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	92.73
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.3
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.32
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	90.93
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	90.64
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	90.6
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	90.49
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	90.48
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	87.91
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.45
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	87.37
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	87.35
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	87.3
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.11
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	87.09
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	87.03
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.91
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	86.58
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.17
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	85.85
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	85.8
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	85.61
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	85.15
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	84.89
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.87
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	84.86
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	84.28
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	81.61
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	80.07

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=5.1e-39  Score=223.65  Aligned_cols=166  Identities=52%  Similarity=0.978  Sum_probs=155.3

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+|+|++|||||||+++|..+.+.+.+.++.+.+.....+...+..+.+.+||+||++.+..++..+++.+|++|
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~i   82 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   82 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEE
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            68899999999999999999999999988888888888888888999999899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||+++++++..+..|+..+........|+++++||+|+.+...+..++++.+++.++++|+++||++|.|++++|++|
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l  162 (169)
T d3raba_          83 LMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL  162 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHH
Confidence            99999999999999999888877777789999999999998888888999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          161 TADIKN  166 (198)
Q Consensus       161 ~~~~~~  166 (198)
                      .+.+.+
T Consensus       163 ~~~i~e  168 (169)
T d3raba_         163 VDVICE  168 (169)
T ss_dssp             HHHHHT
T ss_pred             HHHHhh
Confidence            998875

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1e-38  Score=222.47  Aligned_cols=168  Identities=50%  Similarity=0.866  Sum_probs=156.9

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+|+|.+|||||||+++|..+.+.+.+.++.+.+.....+..++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i   82 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALI   82 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEE
Confidence            68899999999999999999999999998888888888889899999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+...+..++++.+++.++++++++||++|.||+++|.+|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l  162 (171)
T d2ew1a1          83 LTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDL  162 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHH
Confidence            99999999999999999998888777789999999999998877888899999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.+..
T Consensus       163 ~~~l~~~~  170 (171)
T d2ew1a1         163 ACRLISEA  170 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            98887643

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.3e-38  Score=221.10  Aligned_cols=165  Identities=38%  Similarity=0.755  Sum_probs=148.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      |.+||+|+|.+|||||||+++|..+.+.+.+.++.+.+.....+..++..+.+.+||++|.+.+..++..++.++|++|+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            78999999999999999999999999999999999888888899999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||+++++++..+..|+..+........|+++++||+|+...+.++.++++.+++.++++|+++||++|.||+++|++|.
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~  161 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLC  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHH
Confidence            99999999999999999888777666789999999999988888899999999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       162 ~~i~~  166 (167)
T d1z08a1         162 KRMIE  166 (167)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            98764

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.6e-38  Score=219.33  Aligned_cols=171  Identities=47%  Similarity=0.812  Sum_probs=159.2

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+++|.+|||||||+++|..+.+.+.+.++.+.+.....+..++....+.+||+||++.+..++..++..+|++|
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i   82 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGAL   82 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEE
Confidence            68899999999999999999999999998888898888888888888999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|.++++++..+..|+..+......+.|+++|+||+|+........+....+++.++++|+++||++|.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l  162 (174)
T d2bmea1          83 LVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQC  162 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHH
Confidence            99999999999999999999988877889999999999998777888889999999999999999999999999999999


Q ss_pred             HHHHHHhhhcC
Q 043946          161 TADIKNRMASQ  171 (198)
Q Consensus       161 ~~~~~~~~~~~  171 (198)
                      .+.+.++...+
T Consensus       163 ~~~i~~~~~~~  173 (174)
T d2bmea1         163 ARKILNKIESG  173 (174)
T ss_dssp             HHHHHHHHHSC
T ss_pred             HHHHHHHHhcC
Confidence            99998876543

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.6e-38  Score=218.15  Aligned_cols=164  Identities=48%  Similarity=0.890  Sum_probs=154.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+|+|.+|||||||+++|..+.+...+.++.+.+.....+..++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~i   81 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   81 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEE
Confidence            68999999999999999999999999998888888888888899999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|+|+++++++..+..|+..+........|+++++||+|+........++++.+++.++++++++||++|.||+++|++|
T Consensus        82 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i  161 (166)
T d1z0fa1          82 MVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEA  161 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999988877889999999999998877888899999999999999999999999999999999


Q ss_pred             HHHH
Q 043946          161 TADI  164 (198)
Q Consensus       161 ~~~~  164 (198)
                      .+.+
T Consensus       162 ~~~i  165 (166)
T d1z0fa1         162 AKKI  165 (166)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8875

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.7e-37  Score=219.37  Aligned_cols=170  Identities=77%  Similarity=1.206  Sum_probs=158.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      |+.+||+|+|++|||||||+++|..+.+...+.++.+.+.....+.+++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         4 ~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i   83 (194)
T d2bcgy1           4 DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGII   83 (194)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            68899999999999999999999999888889999888888888999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||+++++++..+..|+..+......+.|+++|+||.|+.+...+..++...++...++.|+++||++|.|++++|++|
T Consensus        84 ~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l  163 (194)
T d2bcgy1          84 IVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTM  163 (194)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHH
Confidence            99999999999999999998888777889999999999999888888999999999999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      ++.+.+....
T Consensus       164 ~~~i~~~~~~  173 (194)
T d2bcgy1         164 ARQIKESMSQ  173 (194)
T ss_dssp             HHHHHHHCCH
T ss_pred             HHHHHHHhhh
Confidence            9988764443

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.5e-37  Score=217.27  Aligned_cols=170  Identities=51%  Similarity=0.836  Sum_probs=155.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+|+|++|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|.+.+...+..++..+|++|
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            68999999999999999999999999988888888888888888999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||.++++++..+..|+..+......+.|+++|+||+|+.+.+....+....+...++.+++++||++|.|++++|++|
T Consensus        82 ~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l  161 (175)
T d2f9la1          82 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  161 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHH
Confidence            99999999999999999999988888889999999999998777777788888888999999999999999999999999


Q ss_pred             HHHHHHhhhc
Q 043946          161 TADIKNRMAS  170 (198)
Q Consensus       161 ~~~~~~~~~~  170 (198)
                      ++.+.+...+
T Consensus       162 ~~~i~~~~~~  171 (175)
T d2f9la1         162 LTEIYRIVSQ  171 (175)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhh
Confidence            9998765554

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-37  Score=217.14  Aligned_cols=170  Identities=51%  Similarity=0.870  Sum_probs=154.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      |.+||+|+|++|||||||+++|.+..+.+.+.++.+.+.........+..+.+.+||++|++.+..++..++..+|++|+
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            78999999999999999999999999888888888888888888889988999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||++++.++..+..|+..+......+.|+++|+||+|+...+....++...+++.++++|+++||++|.||+++|.+|.
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~  161 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTA  161 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999999988888777899999999999988778888999999999999999999999999999999999


Q ss_pred             HHHHHhhhcC
Q 043946          162 ADIKNRMASQ  171 (198)
Q Consensus       162 ~~~~~~~~~~  171 (198)
                      +.+.++..+.
T Consensus       162 ~~i~~~~~~~  171 (173)
T d2a5ja1         162 KEIYRKIQQG  171 (173)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHcc
Confidence            9998766553

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.6e-38  Score=219.58  Aligned_cols=169  Identities=60%  Similarity=1.081  Sum_probs=129.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ||.+||+++|.+|||||||+++|..+.+...+.++.+.+.....+..++..+.+.+||+||++.+..++..+++.+|++|
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i   83 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIM   83 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEE
Confidence            68899999999999999999999998888888888888888899999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      +|||++++.++..+..|+..+......+.|+++|+||.|+........+++..++...+++|+++||++|.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l  163 (173)
T d2fu5c1          84 LVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTL  163 (173)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHH
T ss_pred             EEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999987777789999999999998877777888889999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      .+.+.+++.
T Consensus       164 ~~~i~~k~~  172 (173)
T d2fu5c1         164 ARDIKAKMD  172 (173)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhcC
Confidence            999987654

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=5.1e-38  Score=217.51  Aligned_cols=163  Identities=35%  Similarity=0.663  Sum_probs=152.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|..+.+.+.+.++.+.+.....+...+..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999998888899998888888899999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      ||+++++++..+..|+..+..... +.|+++|+||+|+.+.+.+..++++.+++.++++|+++||++|.||+++|++|.+
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHC-SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccCC-CceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHH
Confidence            999999999999999999877655 6899999999999888888899999999999999999999999999999999998


Q ss_pred             HHHH
Q 043946          163 DIKN  166 (198)
Q Consensus       163 ~~~~  166 (198)
                      .+.+
T Consensus       161 ~~lq  164 (164)
T d1z2aa1         161 KHLQ  164 (164)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            8763

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-37  Score=215.08  Aligned_cols=166  Identities=30%  Similarity=0.381  Sum_probs=135.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|.+..... ..++. .+.....+.+++..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGP-EAEAA-GHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCC-cCCee-eeeecceeeccccccceeeeecccccccceecccchhhhhhhcee
Confidence            3799999999999999999999876543 33333 344456778899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.++..+++.+++.++++|+++||++|.|++++|++|.
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHH
T ss_pred             ccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            999999999999999998877643 5689999999999988888889999999999999999999999999999999999


Q ss_pred             HHHHHhhhc
Q 043946          162 ADIKNRMAS  170 (198)
Q Consensus       162 ~~~~~~~~~  170 (198)
                      +.+..++.+
T Consensus       159 ~~i~~~~~~  167 (168)
T d2gjsa1         159 RQIRLRRDS  167 (168)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhhC
Confidence            988776543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.6e-37  Score=214.44  Aligned_cols=167  Identities=34%  Similarity=0.587  Sum_probs=151.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|..+.+.+.+.++.. +.....+.+++..+.+.+||++|.+.+...+..++..+|++|+
T Consensus         5 ~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~   83 (173)
T d2fn4a1           5 ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLL   83 (173)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccceeeee
Confidence            468999999999999999999999998888777754 4555778889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+.+.. ..+.|+++|+||+|+.+.+....+++..+++.++++|+++||++|.||+++|++|
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l  163 (173)
T d2fn4a1          84 VFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQL  163 (173)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             ecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHH
Confidence            999999999999999998876653 4578999999999998877788899999999999999999999999999999999


Q ss_pred             HHHHHHhhh
Q 043946          161 TADIKNRMA  169 (198)
Q Consensus       161 ~~~~~~~~~  169 (198)
                      ++.+.+++.
T Consensus       164 ~~~i~k~~~  172 (173)
T d2fn4a1         164 VRAVRKYQE  172 (173)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhc
Confidence            999987654

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.2e-37  Score=212.40  Aligned_cols=161  Identities=42%  Similarity=0.759  Sum_probs=151.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      +||+|+|.+|||||||+++|..+.+.+.+.++.+.+.....+..++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            69999999999999999999999999899999888888888888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~~  163 (198)
                      |++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++++.+++.++++|+++||++|.||+++|++|.+.
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~  160 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA  160 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHh
Confidence            99999999999999999888777789999999999998877888899999999999999999999999999999999886


Q ss_pred             H
Q 043946          164 I  164 (198)
Q Consensus       164 ~  164 (198)
                      +
T Consensus       161 l  161 (164)
T d1yzqa1         161 L  161 (164)
T ss_dssp             S
T ss_pred             h
Confidence            5

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.5e-36  Score=210.74  Aligned_cols=162  Identities=42%  Similarity=0.754  Sum_probs=153.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|.+|||||||+++|..+.+.+.+.++............++....+.+||++|++.+..++..++..+|++|+|
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   83 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIV   83 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEE
Confidence            58999999999999999999999999999999988888888888899889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      ||+++++++..+..|+..+......+.|+++|+||+|+.+.+.+..++++++++.++++|+++||++|.||+++|.+|.+
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~  163 (167)
T d1z0ja1          84 YDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISR  163 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             eeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHH
Confidence            99999999999999998888888888999999999999888888999999999999999999999999999999999988


Q ss_pred             HH
Q 043946          163 DI  164 (198)
Q Consensus       163 ~~  164 (198)
                      .+
T Consensus       164 ~i  165 (167)
T d1z0ja1         164 RI  165 (167)
T ss_dssp             HC
T ss_pred             hC
Confidence            75

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.9e-36  Score=210.56  Aligned_cols=164  Identities=37%  Similarity=0.618  Sum_probs=148.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||++++.++.+.+.+.++.+..+ ...+..++..+.+.+||++|.+.+...+..+++.+|++++|
T Consensus         4 t~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv   82 (169)
T d1x1ra1           4 TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIV   82 (169)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEEe
Confidence            58999999999999999999999988888888776443 46677899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC-CHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL-NVEQAFMAM  160 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~-~i~~~~~~l  160 (198)
                      ||++++.++..+..|+..+.+.. ..+.|+++++||+|+.+.+.++.+++.++++.++++|+++||+++. ||+++|++|
T Consensus        83 ~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l  162 (169)
T d1x1ra1          83 YSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDL  162 (169)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHH
T ss_pred             cccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHH
Confidence            99999999999999999887664 3578999999999999888899999999999999999999999886 999999999


Q ss_pred             HHHHHHh
Q 043946          161 TADIKNR  167 (198)
Q Consensus       161 ~~~~~~~  167 (198)
                      ++.+.++
T Consensus       163 ~~~i~~~  169 (169)
T d1x1ra1         163 VRVIRQQ  169 (169)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhC
Confidence            9988763

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=100.00  E-value=5e-37  Score=213.28  Aligned_cols=163  Identities=40%  Similarity=0.674  Sum_probs=145.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|.+|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.+||++|.+.+..++..+++.+|++++|
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCV   82 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEEE
Confidence            579999999999999999999999988888888775543 5677899999999999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+.+.. ..+.|+++|+||+|+.+.+.++.++++.+++.++++|+++||++|.|++++|++|+
T Consensus        83 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~  162 (168)
T d1u8za_          83 FSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLM  162 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             eeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHH
Confidence            99999999999999998887664 35789999999999988888899999999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       163 ~~i~~  167 (168)
T d1u8za_         163 REIRA  167 (168)
T ss_dssp             HHHHT
T ss_pred             HHHHC
Confidence            98764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-36  Score=210.79  Aligned_cols=163  Identities=32%  Similarity=0.518  Sum_probs=148.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|++|||||||+++|.++.+.+.+.++.+..+ ...+.+++..+.+.+||++|.+.+..++..++..+|++|+
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   81 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEE
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhh
Confidence            368999999999999999999999888888888877664 4677889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||+++++++..+..|+..+.... ..+.|+++|+||+|+...+.++.+++..+++.++++|+++||++|.||+++|+.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~l  161 (167)
T d1xtqa1          82 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            999999999999999998887654 4578999999999998888889999999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          161 TADIK  165 (198)
Q Consensus       161 ~~~~~  165 (198)
                      ++.+.
T Consensus       162 i~~~~  166 (167)
T d1xtqa1         162 ILEAE  166 (167)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.1e-36  Score=213.38  Aligned_cols=162  Identities=27%  Similarity=0.434  Sum_probs=141.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|..+.+...+.++.+.. ........+..+.+.+||++|++.+...+..++..+|++++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            6899999999999999999999999988888887744 446667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhC-CcEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIG-IPFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~S~~~  149 (198)
                      ||+++++||..+..|+.........+.|+++|+||+|+.+            ...+..++++++++.++ ++|+++||++
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  161 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALT  161 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTT
T ss_pred             cccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCC
Confidence            9999999999998755554444556799999999999863            23477889999998875 6999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIK  165 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~  165 (198)
                      |.||+++|+.|.+.+.
T Consensus       162 ~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         162 QKGLKNVFDEAILAAL  177 (191)
T ss_dssp             CTTHHHHHHHHHHHHT
T ss_pred             CcCHHHHHHHHHHHHh
Confidence            9999999999988765

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.2e-37  Score=216.57  Aligned_cols=170  Identities=44%  Similarity=0.811  Sum_probs=149.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECC----------eEEEEEEEeCCCccccccccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDG----------KTVKLQIWDTAGQERFRTITS   70 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~g~~~~~~~~~   70 (198)
                      ||.+||+|+|++|||||||+++|.++.+.+.+.++.+.++....+..++          ..+.+.+||++|++.+..++.
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~   82 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT   82 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHH
Confidence            6789999999999999999999999988888888777666666554432          346899999999999999999


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD  149 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~  149 (198)
                      .++.++|++|+|||++++.++..+..|+..+.... ....|+++|+||.|+.+.+.+..+++.+++++++++|+++||++
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~  162 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT  162 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTT
T ss_pred             HHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCC
Confidence            99999999999999999999999999987765543 34678999999999988888999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhhc
Q 043946          150 SLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~~~~~  170 (198)
                      |.|++++|++|.+.+.++..+
T Consensus       163 ~~~i~e~f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         163 GQNVEKAVETLLDLIMKRMEQ  183 (186)
T ss_dssp             TBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHh
Confidence            999999999999999876553

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.6e-36  Score=207.98  Aligned_cols=165  Identities=52%  Similarity=0.978  Sum_probs=142.8

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCC-CcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDS-YISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGI   79 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~   79 (198)
                      |+.+||+|+|+++||||||+++|..+.+... +.++.+.+.....+...+..+.+.+||++|++.+..++..++..+|++
T Consensus         4 d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~   83 (170)
T d2g6ba1           4 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHAL   83 (170)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEE
T ss_pred             ceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCcee
Confidence            5789999999999999999999998876544 445566777888888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           80 IIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      ++|||+++++++..+..|+..+........|+++++||.|+.....+..+++..+++.++++|+++||++|.|++++|++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~  163 (170)
T d2g6ba1          84 LLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTA  163 (170)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            99999999999999999998887777778899999999999888888999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |.+.+.
T Consensus       164 l~~~i~  169 (170)
T d2g6ba1         164 IAKELK  169 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHcC
Confidence            998875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.1e-36  Score=210.53  Aligned_cols=163  Identities=48%  Similarity=0.814  Sum_probs=153.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+.+.+.++.+.+.....+...+..+.+.+||++|.+.+..++..+++.+|++++|
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   85 (170)
T d1r2qa_           6 QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVV   85 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEE
Confidence            47999999999999999999999999889999998888888888999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      +|.++++++..+..|+..+.+....+.|+++|+||+|+.+.+.++.++++++++.++++|+++||++|.||+++|++|.+
T Consensus        86 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~  165 (170)
T d1r2qa_          86 YDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAK  165 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             eccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHH
Confidence            99999999999999999988877778999999999999888889999999999999999999999999999999999987


Q ss_pred             HHH
Q 043946          163 DIK  165 (198)
Q Consensus       163 ~~~  165 (198)
                      .+.
T Consensus       166 ~i~  168 (170)
T d1r2qa_         166 KLP  168 (170)
T ss_dssp             TSC
T ss_pred             HHh
Confidence            654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.5e-36  Score=208.55  Aligned_cols=166  Identities=33%  Similarity=0.581  Sum_probs=145.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|..+.+.+.+.++.+ +.....+.+++..+.+.+||++|.+.+...+..++..+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            458999999999999999999999988888888765 5556778889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||.++++++..+..|+..+.... ....|+++|+||+|+.+.+.+..++++++++.++++|+++||++|.||+++|++|
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999998766553 4568999999999998888889999999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      ++.+.+++
T Consensus       163 ~~~i~k~~  170 (171)
T d2erya1         163 VRVIRKFQ  170 (171)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhh
Confidence            99986543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.5e-37  Score=212.69  Aligned_cols=163  Identities=33%  Similarity=0.507  Sum_probs=145.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+|+|.+|||||||+++|+.+.+.+.+.++.+... ......++..+.+.+||++|.+.+...+..++..+|++++
T Consensus         1 n~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   79 (171)
T d2erxa1           1 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   79 (171)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEE
Confidence            358999999999999999999999998888888877444 4566788888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC--CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS--ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |||+++++++..+..|+..+.....  .+.|+++|+||+|+...+.+..++++++++.++++|+++||++|.||+++|+.
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~  159 (171)
T d2erxa1          80 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  159 (171)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            9999999999999999988866543  56899999999999887888899999999999999999999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |++.+.
T Consensus       160 l~~~~~  165 (171)
T d2erxa1         160 LLNLEK  165 (171)
T ss_dssp             HHHTCC
T ss_pred             HHHHHH
Confidence            987654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-35  Score=209.47  Aligned_cols=162  Identities=31%  Similarity=0.502  Sum_probs=141.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|.+|||||||+++|+.+.+.+.+.++.+ +.....+...+..+.+.+||++|++.+...+..++..+|++++|
T Consensus         9 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv   87 (185)
T d2atxa1           9 MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLIC   87 (185)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeec
Confidence            68999999999999999999999999888888876 44556777888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhC-CcEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIG-IPFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~S~~~  149 (198)
                      ||++++++|..+..|+....+....+.|+++|+||+|+.+            .+.++.+++.++++.++ +.|++|||++
T Consensus        88 ~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~  167 (185)
T d2atxa1          88 FSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALT  167 (185)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTT
T ss_pred             cccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCC
Confidence            9999999998876544444444455799999999999864            34678889999999998 6999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIK  165 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~  165 (198)
                      |.||+++|+.+++.++
T Consensus       168 ~~gv~e~F~~li~~il  183 (185)
T d2atxa1         168 QKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHc
Confidence            9999999999998875

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-35  Score=205.57  Aligned_cols=165  Identities=56%  Similarity=1.001  Sum_probs=146.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|+.+.+.+.+.++.+.+.....+..++..+.+.+||+||++.+..++..+++++|++|+
T Consensus         1 ~~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T d1g16a_           1 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   80 (166)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            36899999999999999999999999988999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      |||.++++++..+..|+..+........|++++++|.|+.. +....+++.+++..++++++++||++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~  159 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHH
Confidence            99999999999999999888888777889999999999864 45678899999999999999999999999999999999


Q ss_pred             HHHHHh
Q 043946          162 ADIKNR  167 (198)
Q Consensus       162 ~~~~~~  167 (198)
                      +.+.++
T Consensus       160 ~~i~~k  165 (166)
T d1g16a_         160 KLIQEK  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            988765

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.4e-35  Score=206.41  Aligned_cols=163  Identities=31%  Similarity=0.510  Sum_probs=142.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ..||+|+|++|||||||+++|..+.+.+.+.++.+ ..........+..+.+.+||++|++.+...+..++..+|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            47999999999999999999999999888888876 44456677888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      ||++++++|..+..|+.........+.|+++|+||+|+.+.            +.+..++...+++.++. +|+++||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            99999999998877555544444567999999999999642            34678889999999984 899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 043946          150 SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~~i~~~~~~l~~~~~~  166 (198)
                      |.||+++|+.|.+.+++
T Consensus       161 ~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         161 KDGVREVFEMATRAALQ  177 (177)
T ss_dssp             CTTHHHHHHHHHHHHHC
T ss_pred             CcCHHHHHHHHHHHHhC
Confidence            99999999999988763

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.7e-36  Score=206.74  Aligned_cols=164  Identities=34%  Similarity=0.531  Sum_probs=143.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      -+||+++|++|||||||+++|+.+.+.+.+.||.+..+. ..+..++..+.+.+||++|.+.+. ....++..+|++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            489999999999999999999999998888998876655 444578888999999999987764 456688899999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCC-CHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSL-NVEQAFMAM  160 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~-~i~~~~~~l  160 (198)
                      ||++++.++..+..|+....... ..+.|+++|+||+|+.+.+.++.++++++++.++++|+++||++|. ||+++|.+|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l  159 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL  159 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHH
Confidence            99999999999999877665443 3579999999999998877889999999999999999999999998 599999999


Q ss_pred             HHHHHHhh
Q 043946          161 TADIKNRM  168 (198)
Q Consensus       161 ~~~~~~~~  168 (198)
                      .+.+.+++
T Consensus       160 ~~~i~~~r  167 (168)
T d2atva1         160 CREVRRRR  167 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99887754

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-35  Score=206.32  Aligned_cols=163  Identities=37%  Similarity=0.645  Sum_probs=147.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|+.+.+.+.+.++.+ +.....+..++..+.+.+||++|.+.+...+..++..+|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            368999999999999999999999998888888776 4455677789999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAM  160 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l  160 (198)
                      |||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..+++.++++|+++||++|.|++++|++|
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHH
Confidence            9999999999999999988876543 578999999999998877888899999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          161 TADIK  165 (198)
Q Consensus       161 ~~~~~  165 (198)
                      .+.+.
T Consensus       161 ~~~i~  165 (167)
T d1kaoa_         161 VRQMN  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            88764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.1e-35  Score=205.40  Aligned_cols=162  Identities=40%  Similarity=0.717  Sum_probs=149.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+.+.+.++.+.++....+..++..+.+.+||++|.+.+..++..++..+|++++|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            68999999999999999999999999989999988888888999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC---CCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD---KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      ||++++.++..+..|+..+........|+++++||.|+.+   .+.+..+++.++++.++++|+++||++|.||+++|.+
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~  162 (170)
T d1ek0a_          83 YDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLG  162 (170)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHH
Confidence            9999999999999999888777777899999999999854   3577889999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          160 MTADI  164 (198)
Q Consensus       160 l~~~~  164 (198)
                      |.+.+
T Consensus       163 i~~~i  167 (170)
T d1ek0a_         163 IGEKI  167 (170)
T ss_dssp             HHTTS
T ss_pred             HHHHh
Confidence            87653

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-36  Score=211.64  Aligned_cols=161  Identities=32%  Similarity=0.631  Sum_probs=140.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|..+.+...+.++.+.++....+..++..+.+.+||++|.+.+..++..++..+|++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            58999999999999999999999999888899988888888888888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMTA  162 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~~  162 (198)
                      ||+++++++..+..|+..+..... +.|+++|+||+|+......  ++...++...+++|+++||++|.||+++|++|.+
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHHC-SCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhhccC-CCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            999999999999999988877654 6999999999999765432  3445677788899999999999999999999999


Q ss_pred             HHHH
Q 043946          163 DIKN  166 (198)
Q Consensus       163 ~~~~  166 (198)
                      .+..
T Consensus       160 ~l~~  163 (170)
T d1i2ma_         160 KLIG  163 (170)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            8864

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.1e-35  Score=203.37  Aligned_cols=163  Identities=36%  Similarity=0.642  Sum_probs=145.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|.+|||||||+++|..+++.+.+.++.+... ...+..++..+.+.+||++|.+.+...+..++..+|++|+
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            468999999999999999999999999888888877444 4566778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-CCcEEEEeccCCCCHHHHHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-GIPFMETSAKDSLNVEQAFMA  159 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~S~~~~~~i~~~~~~  159 (198)
                      |||++++.++..+..|+..+.+.. ..+.|+++|+||+|+........++...+++.+ +++|+++||++|.||+++|++
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~  160 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHH
Confidence            999999999999999998887654 457899999999999888888888888888875 689999999999999999999


Q ss_pred             HHHHHH
Q 043946          160 MTADIK  165 (198)
Q Consensus       160 l~~~~~  165 (198)
                      |.+.+.
T Consensus       161 l~~~i~  166 (167)
T d1c1ya_         161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.5e-34  Score=200.36  Aligned_cols=162  Identities=36%  Similarity=0.692  Sum_probs=145.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|+++.+...+.++.+.... ..+...+..+.+.+||++|.+.+...+..++..++++++|
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv   81 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhccccccee
Confidence            489999999999999999999999998888888876555 4456788889999999999999998999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      +|++++.++..+..|+..+..... .++|+++|+||+|+.. +.+..++++.+++.++++|+++||++|.||+++|.+|+
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~  160 (166)
T d1ctqa_          82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             ecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHH
Confidence            999999999999999999877654 5689999999999864 45678899999999999999999999999999999999


Q ss_pred             HHHHH
Q 043946          162 ADIKN  166 (198)
Q Consensus       162 ~~~~~  166 (198)
                      +.+.+
T Consensus       161 ~~i~~  165 (166)
T d1ctqa_         161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            98764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-34  Score=202.09  Aligned_cols=167  Identities=41%  Similarity=0.745  Sum_probs=132.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEEC-CeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQD-GKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +.+||+++|++|||||||+++|.++.+.+.+.++.+........... .....+.+||++|++.+...+..++..+|+++
T Consensus         1 n~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (175)
T d1ky3a_           1 NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCV   80 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEE
Confidence            36899999999999999999999988888888877666665555444 34467899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCC-cCCHHHHHHHHHHhC-CcEEEEeccCCCCHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKK-VVSYETAKAFADEIG-IPFMETSAKDSLNVE  154 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~-~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~  154 (198)
                      +|||++++.++..+..|+..+.....    .++|+++++||+|+.+.+ .+..++++++++.++ ++|+++||++|.|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~  160 (175)
T d1ky3a_          81 LVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVD  160 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHH
T ss_pred             EEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHH
Confidence            99999999999999999988865432    468999999999997653 367788899999986 789999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 043946          155 QAFMAMTADIKNRM  168 (198)
Q Consensus       155 ~~~~~l~~~~~~~~  168 (198)
                      ++|++|.+.+.+++
T Consensus       161 e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         161 TAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999888764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-34  Score=201.43  Aligned_cols=164  Identities=48%  Similarity=0.841  Sum_probs=149.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      ++||+|+|.+|||||||+++|.++.+.+.+.++.+.......+..++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         7 ~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v   86 (177)
T d1x3sa1           7 TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILV   86 (177)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            58999999999999999999999999888888888888888889999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHHHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQAFMAMT  161 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~~~~l~  161 (198)
                      ||++++.++..+..|+..+..... ...|+++++||.|.. .+.+..+++..+++.++++|+++||++|.|++++|++|+
T Consensus        87 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~  165 (177)
T d1x3sa1          87 YDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELV  165 (177)
T ss_dssp             EETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EECCCccccccchhhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999999988866543 468899999999975 456788999999999999999999999999999999999


Q ss_pred             HHHHHh
Q 043946          162 ADIKNR  167 (198)
Q Consensus       162 ~~~~~~  167 (198)
                      +.+.+.
T Consensus       166 ~~l~~~  171 (177)
T d1x3sa1         166 EKIIQT  171 (177)
T ss_dssp             HHHHTS
T ss_pred             HHHccC
Confidence            998864

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.1e-34  Score=200.60  Aligned_cols=165  Identities=30%  Similarity=0.429  Sum_probs=140.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCC---cccccccccccccCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAG---QERFRTITSSYYRGAH   77 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g---~~~~~~~~~~~~~~~d   77 (198)
                      ..+||+++|.+|||||||+++|.+.... ....++.+.+.....+.+++..+.+.+||+++   ++.+  ++..++..+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            5799999999999999999999976543 23445556667778888999999999999875   3333  5667899999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHHH
Q 043946           78 GIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      ++|+|||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++++++..++++|+++||++|.|++++
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~  159 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKEL  159 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHH
Confidence            9999999999999999999998886653 357999999999999888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 043946          157 FMAMTADIKNRM  168 (198)
Q Consensus       157 ~~~l~~~~~~~~  168 (198)
                      |++|.+.+..++
T Consensus       160 f~~l~~~i~~rr  171 (172)
T d2g3ya1         160 FEGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcc
Confidence            999999987654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=2.3e-34  Score=202.54  Aligned_cols=167  Identities=40%  Similarity=0.719  Sum_probs=148.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+...+..+.+.+||++|...+...+..++..+|+++++
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            58999999999999999999999999989999998888888898999899999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH-hCCcEEEEeccCCCCHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~S~~~~~~i~~~~  157 (198)
                      +|.+++.++..+..|+..+.....    .+.|+++|+||+|+.+. .+..++...++.. .+++++++||++|.||+++|
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f  160 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAF  160 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHH
Confidence            999999999999999987766532    35899999999998754 4667777777655 56899999999999999999


Q ss_pred             HHHHHHHHHhhhc
Q 043946          158 MAMTADIKNRMAS  170 (198)
Q Consensus       158 ~~l~~~~~~~~~~  170 (198)
                      ++|.+.+.++..+
T Consensus       161 ~~l~~~i~~~~~~  173 (184)
T d1vg8a_         161 QTIARNALKQETE  173 (184)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccc
Confidence            9999988776554

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.9e-34  Score=198.38  Aligned_cols=163  Identities=42%  Similarity=0.759  Sum_probs=144.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+|+|.+|||||||+++|..+.+.+.+.++.+.......+...+..+.+.+||++|.......+..++..+|+++++
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~   85 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLT   85 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEE
Confidence            57999999999999999999999999888889888888888888899999999999999998888999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC----CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCHHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS----ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~----~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~~~  157 (198)
                      +|.+++.++..+..|+..+.....    .+.|+++|+||+|+.+ +.+..+++++++++++ ++|+++||++|.||+++|
T Consensus        86 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f  164 (174)
T d1wmsa_          86 FSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF  164 (174)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHH
T ss_pred             EeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHH
Confidence            999999999999999988866532    4689999999999964 5678899999998875 799999999999999999


Q ss_pred             HHHHHHHHH
Q 043946          158 MAMTADIKN  166 (198)
Q Consensus       158 ~~l~~~~~~  166 (198)
                      ++|++.+++
T Consensus       165 ~~l~~~il~  173 (174)
T d1wmsa_         165 EEAVRRVLA  173 (174)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999998863

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.5e-34  Score=198.91  Aligned_cols=159  Identities=45%  Similarity=0.843  Sum_probs=143.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccc-cccccccCccEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-ITSSYYRGAHGII   80 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~~i   80 (198)
                      +.+||+++|.+|||||||+++|..+.+...+.++.+.......+........+.+||++|...... .+..++.++|++|
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            479999999999999999999999999888888888888888888999999999999999876654 4677899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcC-CCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccC---CCCHHHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRYAS-ENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKD---SLNVEQA  156 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~---~~~i~~~  156 (198)
                      +|||+++++++..+..|+..+.+... .+.|+++|+||+|+.+.+.++.++++++++.++++|+++||++   +.||+++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~  160 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  160 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHH
Confidence            99999999999999999988877643 5789999999999988888899999999999999999999987   4699999


Q ss_pred             HHHH
Q 043946          157 FMAM  160 (198)
Q Consensus       157 ~~~l  160 (198)
                      |++|
T Consensus       161 F~~l  164 (165)
T d1z06a1         161 FMTL  164 (165)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            9987

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.8e-34  Score=201.96  Aligned_cols=164  Identities=31%  Similarity=0.551  Sum_probs=141.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      +..+||+|+|.+|||||||+++|+.+.+.+.+.++.+. .....+..++..+.+.+||++|++.+..++..++..+|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~-~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCC-EEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceee-ceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            35799999999999999999999999988888888763 44466778999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHHhcCCCCcEEEEEeCCCCCCC------------CcCCHHHHHHHHHHhC-CcEEEEe
Q 043946           81 IVYDVTDQESFNNVKQ-WLNEIDRYASENVNKLLVGNKCDLTDK------------KVVSYETAKAFADEIG-IPFMETS  146 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~iiv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~S  146 (198)
                      +|||++++++|..+.. |...+.. ...+.|+++|+||+|+...            ......+...+++.++ ++|+++|
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~-~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~S  160 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRH-HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  160 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHH-HSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             eeeccchHHHHHHHHHHHHHHHHH-hCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcC
Confidence            9999999999999877 4444444 4557999999999998543            2345667888888887 7999999


Q ss_pred             ccCCCCHHHHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~~~  166 (198)
                      |++|.||+++|++|++.+++
T Consensus       161 Ak~~~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         161 ALTQRGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             TTTCTTHHHHHHHHHHHHSC
T ss_pred             CCCCcCHHHHHHHHHHHHcC
Confidence            99999999999999998863

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.1e-33  Score=198.11  Aligned_cols=163  Identities=29%  Similarity=0.488  Sum_probs=141.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|.+|||||||+++|..+.+++.+.++.. +.....+..++..+.+.+||++|++.+...+..++..+|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-ecccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            57999999999999999999999999888888875 44446677888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC------------CCcCCHHHHHHHHHHhCC-cEEEEeccC
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD------------KKVVSYETAKAFADEIGI-PFMETSAKD  149 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~S~~~  149 (198)
                      ||+++++||..+..|+.........+.|+++|+||+|+..            .+.+..++...++++++. .|+++||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            9999999999988765554444456899999999999853            345778899999999875 899999999


Q ss_pred             CC-CHHHHHHHHHHHHHH
Q 043946          150 SL-NVEQAFMAMTADIKN  166 (198)
Q Consensus       150 ~~-~i~~~~~~l~~~~~~  166 (198)
                      |. +++++|+.+.+.+.+
T Consensus       161 ~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVN  178 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHhc
Confidence            97 599999999998875

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.6e-31  Score=185.16  Aligned_cols=161  Identities=24%  Similarity=0.357  Sum_probs=133.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||++++..+.+.. ..++.. +.....+.+++..+.+.+||++|+..+     .+++.+|++|+|
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~-~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilV   77 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTES-EQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFV   77 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSC-EEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccc-eeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEE
Confidence            4899999999999999999999988754 344443 344577788999999999999997654     378889999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcC---CCCcEEEEEeCCCCCC--CCcCCHHHHHHHHHH-hCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRYAS---ENVNKLLVGNKCDLTD--KKVVSYETAKAFADE-IGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~---~~~p~iiv~nK~D~~~--~~~~~~~~~~~~~~~-~~~~~~~~S~~~~~~i~~~  156 (198)
                      ||+++++||..+..|+..+.....   .+.|+++|+||.|+..  .+.+..++++.++.. ++++|+++||++|.|++++
T Consensus        78 fd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~  157 (175)
T d2bmja1          78 FSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRV  157 (175)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHH
T ss_pred             eecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHH
Confidence            999999999999999988866543   4679999999888753  455677888888654 5679999999999999999


Q ss_pred             HHHHHHHHHHhhhc
Q 043946          157 FMAMTADIKNRMAS  170 (198)
Q Consensus       157 ~~~l~~~~~~~~~~  170 (198)
                      |..|.+.+...+.+
T Consensus       158 F~~l~~~i~~~~~~  171 (175)
T d2bmja1         158 FQEVAQKVVTLRKQ  171 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhh
Confidence            99999988876543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.97  E-value=2.9e-31  Score=183.29  Aligned_cols=155  Identities=25%  Similarity=0.403  Sum_probs=126.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|..+.+.+.+.+|.+.+.  ..+..++  +.+.+||+||++.+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM--RKITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEE--EEEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeee--eeeeeee--EEEEEeeccccccccccccccccccchhhcc
Confidence            48999999999999999999999988888888776444  3445555  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      ||+++++++.....|+..+... ...+.|+++|+||.|+.+..  ...++.+..     ...+++++++||++|.|++++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  155 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDIT  155 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHH
Confidence            9999999999888877655443 34579999999999986543  333333222     223457899999999999999


Q ss_pred             HHHHHHH
Q 043946          157 FMAMTAD  163 (198)
Q Consensus       157 ~~~l~~~  163 (198)
                      |+||++.
T Consensus       156 ~~~l~~~  162 (164)
T d1zd9a1         156 LQWLIQH  162 (164)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHc
Confidence            9999875

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.97  E-value=5.5e-31  Score=181.98  Aligned_cols=158  Identities=25%  Similarity=0.406  Sum_probs=123.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|++|||||||+++|.+..+. ...++.+  .....+...+  +.+.+||++|++.+...+..++..++++++
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   75 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLG--FNIKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIW   75 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSS--EEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEe--eeeeeccccc--cceeeeecCcchhhhhHHHhhhhhhhccee
Confidence            3589999999999999999999887653 4555554  3344555565  789999999999998999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~-~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|+++..++.....++... ......+.|+++|+||+|+.+..  ..++......     ..++.++++||++|.|+++
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  153 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLP  153 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             eeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccccc--CHHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHH
Confidence            99999999888776655444 33344679999999999997544  3333333221     1234789999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +|+||.+.+.+
T Consensus       154 ~~~~l~~~i~~  164 (165)
T d1ksha_         154 GIDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHc
Confidence            99999998875

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.97  E-value=4.9e-31  Score=184.05  Aligned_cols=156  Identities=26%  Similarity=0.370  Sum_probs=122.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEE
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGII   80 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i   80 (198)
                      ++.+||+++|++|||||||+++|.++.+.. ..++.+  .....+...+  +.+.+||++|.+.+...+..++..+|++|
T Consensus        14 ~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~--~~~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~~ii   88 (176)
T d1fzqa_          14 DQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQG--FNIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (176)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETT--EEEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeee--eeEEEeccCC--eeEeEeeccccccchhHHHHHhhccceeE
Confidence            357899999999999999999999877642 223333  3444555565  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHH
Q 043946           81 IVYDVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~  154 (198)
                      +|||++++.++..+..|+..+... ...+.|+++++||+|+.+..  ......+..     ....+.++++||++|.|++
T Consensus        89 ~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~  166 (176)
T d1fzqa_          89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (176)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccc--cHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHH
Confidence            999999999999888877665433 33578999999999997543  333333322     1223578999999999999


Q ss_pred             HHHHHHHHH
Q 043946          155 QAFMAMTAD  163 (198)
Q Consensus       155 ~~~~~l~~~  163 (198)
                      |+|+||.+.
T Consensus       167 e~~~~l~~~  175 (176)
T d1fzqa_         167 DGMNWVCKN  175 (176)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999999874

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.97  E-value=1.1e-30  Score=183.30  Aligned_cols=160  Identities=22%  Similarity=0.340  Sum_probs=121.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|....+. ...++.+.  ........+  +.+.+||++|++.+...+..++..+|++++
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~   90 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGF--NVETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIF   90 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTTC--CEEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCC-ccccccce--EEEEEeeCC--EEEEEEecccccccchhHHhhhccceeEEE
Confidence            4689999999999999999999876653 23344433  333444555  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |+|++++.++.....|+..... ....+.|+++|+||+|+.+..  ..+++....     ...++.++++||++|.|+++
T Consensus        91 v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e  168 (182)
T d1moza_          91 VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGEGITE  168 (182)
T ss_dssp             EEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHH
T ss_pred             EeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHH
Confidence            9999999999888887755433 333578999999999996532  344444322     22245789999999999999


Q ss_pred             HHHHHHHHHHHhh
Q 043946          156 AFMAMTADIKNRM  168 (198)
Q Consensus       156 ~~~~l~~~~~~~~  168 (198)
                      +|+||.+.+.+++
T Consensus       169 ~~~~l~~~i~~~~  181 (182)
T d1moza_         169 GLDWLIDVIKEEQ  181 (182)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999987753

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.97  E-value=2.3e-29  Score=175.10  Aligned_cols=155  Identities=24%  Similarity=0.427  Sum_probs=119.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|++|||||||+++|....... ..++.+  ..........  +.+.+||+||...+...+..++..++++|+|
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~--~~~~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v   86 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVG--FNVETVTYKN--VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   86 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETT--EEEEEEEETT--EEEEEEEESCCGGGHHHHGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceee--eeEEEeeccc--eeeEEecCCCcchhhhHHHhhhcccceEEEE
Confidence            5899999999999999999999766532 233333  2333344444  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHH-----HHhCCcEEEEeccCCCCHHHH
Q 043946           83 YDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTDKKVVSYETAKAFA-----DEIGIPFMETSAKDSLNVEQA  156 (198)
Q Consensus        83 ~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~S~~~~~~i~~~  156 (198)
                      +|+++.+++..+..|+..... ....+.|+++++||+|+.+..  ...++....     ...++.++++||++|.|++|+
T Consensus        87 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~  164 (173)
T d1e0sa_          87 VDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAM--KPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEG  164 (173)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHH
T ss_pred             EecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccc--cHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHH
Confidence            999999999988887765543 334579999999999997543  333333322     122456899999999999999


Q ss_pred             HHHHHHHH
Q 043946          157 FMAMTADI  164 (198)
Q Consensus       157 ~~~l~~~~  164 (198)
                      |+||.+.+
T Consensus       165 ~~~l~~~~  172 (173)
T d1e0sa_         165 LTWLTSNY  172 (173)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhc
Confidence            99998754

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.96  E-value=3e-29  Score=171.90  Aligned_cols=153  Identities=19%  Similarity=0.319  Sum_probs=118.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEE
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVY   83 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~   83 (198)
                      |||+++|++|||||||+++|.++.+.........   .....  ....+.+.+||++|...+...+..++..++++++++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~---~~~~~--~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF---NVETV--EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC---CEEEE--ECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceee---EEEEE--eeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            6999999999999999999998776544333322   22222  234478999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHH-----HHHHhCCcEEEEeccCCCCHHHHH
Q 043946           84 DVTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKA-----FADEIGIPFMETSAKDSLNVEQAF  157 (198)
Q Consensus        84 d~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~S~~~~~~i~~~~  157 (198)
                      |..++.++..+..|+..+... .....|+++++||.|+.+..  ...++..     +++..++.++++||++|.|++++|
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~  153 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc--cHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHH
Confidence            999999998888877666543 33568999999999986543  2233222     233345689999999999999999


Q ss_pred             HHHHHH
Q 043946          158 MAMTAD  163 (198)
Q Consensus       158 ~~l~~~  163 (198)
                      +||.+.
T Consensus       154 ~~l~~~  159 (160)
T d1r8sa_         154 DWLSNQ  159 (160)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            999875

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.94  E-value=4.1e-26  Score=158.80  Aligned_cols=156  Identities=21%  Similarity=0.339  Sum_probs=115.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+|+|.+|||||||+++|.+.++... .++.+  .....+...+  ..+.+||+++.+.....+..++..++++++
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEEE-ECCSC--SSCEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccc--eeEEEEeecc--eEEEEeccccccccccchhhhhccceeeee
Confidence            458999999999999999999998776432 22222  2223344444  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHH-hcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH-----HhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLNEIDR-YASENVNKLLVGNKCDLTDKKVVSYETAKAFAD-----EIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  155 (198)
                      ++|.++..++.....+...... ....+.|+++|+||+|+....  ..+++.....     ..+++++++||++|.|+++
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e  166 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ  166 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC--cHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHH
Confidence            9999999988777665544432 233578999999999986543  3444444332     2235799999999999999


Q ss_pred             HHHHHHHHH
Q 043946          156 AFMAMTADI  164 (198)
Q Consensus       156 ~~~~l~~~~  164 (198)
                      +|+||.+.+
T Consensus       167 ~~~~L~~~l  175 (177)
T d1zj6a1         167 GLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.94  E-value=1.4e-25  Score=154.51  Aligned_cols=159  Identities=23%  Similarity=0.392  Sum_probs=121.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ..+||+++|.+|||||||+++|.++.+... .++.+  .....+..++  +.+.+||.+|.+.....+...+...+++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSS--EEEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccc--eeeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhh
Confidence            358999999999999999999998877542 23322  3334445555  788999999999998899999999999999


Q ss_pred             EEECCChhhHHHHHHHHH-HHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHH-----HHHHhCCcEEEEeccCCCCHHH
Q 043946           82 VYDVTDQESFNNVKQWLN-EIDRYASENVNKLLVGNKCDLTDKKVVSYETAKA-----FADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~-~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      ++|..+..++.....+.. .+........|+++++||.|+.+..  ...++..     ++...+++++++||++|.|+++
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e  156 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM--TSSEMANSLGLPALKDRKWQIFKTSATKGTGLDE  156 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccc--cHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHH
Confidence            999998777766665443 3333344568999999999997543  2333322     2333456899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 043946          156 AFMAMTADIKNR  167 (198)
Q Consensus       156 ~~~~l~~~~~~~  167 (198)
                      +|++|.+.+.++
T Consensus       157 ~~~~l~~~l~~k  168 (169)
T d1upta_         157 AMEWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhC
Confidence            999999988654

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.93  E-value=1.6e-25  Score=156.10  Aligned_cols=154  Identities=19%  Similarity=0.129  Sum_probs=106.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc--------cccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR--------TITSSYYR   74 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~   74 (198)
                      -.|+|+|.+|||||||+|+|++..... ...+..+...........+  ..+.+||+||.....        ......+.
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~   83 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALA   83 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccccc
Confidence            469999999999999999999865322 2233333344444455555  678999999964332        22234578


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCCH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLNV  153 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i  153 (198)
                      .+|++++|+|++++..... ..|...+... ..+.|+++|+||+|+....   .+....+....+ ..++++||++|.|+
T Consensus        84 ~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi  158 (178)
T d1wf3a1          84 DVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQV  158 (178)
T ss_dssp             SCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHH
T ss_pred             cccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCH
Confidence            8999999999987644221 3444555443 3468999999999986432   233344444444 47899999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          154 EQAFMAMTADI  164 (198)
Q Consensus       154 ~~~~~~l~~~~  164 (198)
                      ++++++|.+.+
T Consensus       159 ~~L~~~i~~~l  169 (178)
T d1wf3a1         159 AELKADLLALM  169 (178)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhC
Confidence            99999997644

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=1.7e-24  Score=148.36  Aligned_cols=151  Identities=21%  Similarity=0.316  Sum_probs=115.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD   84 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d   84 (198)
                      ||+++|++|||||||+++|.++.+. ...++.+.  ........+  ....+||++|...+...+..++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~--~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHP--TSEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSC--EEEEECCTT--CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeE--eEEEeccCC--eeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            7999999999999999999988764 34454442  223333444  678999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHh-cCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHH------------HhCCcEEEEeccCCC
Q 043946           85 VTDQESFNNVKQWLNEIDRY-ASENVNKLLVGNKCDLTDKKVVSYETAKAFAD------------EIGIPFMETSAKDSL  151 (198)
Q Consensus        85 ~~~~~s~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~------------~~~~~~~~~S~~~~~  151 (198)
                      .++..++.....+....... ...+.|+++++||.|+...  ....++.+...            ...+.++++||++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA--VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSC--CCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEecccccccc--CCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            99998887777766555443 3357899999999998643  23444433321            112468999999999


Q ss_pred             CHHHHHHHHHH
Q 043946          152 NVEQAFMAMTA  162 (198)
Q Consensus       152 ~i~~~~~~l~~  162 (198)
                      |++|+|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999864

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.92  E-value=5.8e-25  Score=153.51  Aligned_cols=158  Identities=16%  Similarity=0.138  Sum_probs=104.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------cccccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------RTITSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------~~~~~~~~~~~d   77 (198)
                      .|+++|.+|||||||+|+|++........+..+.+......... ....+.+||+||....       .......+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVS-EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECS-SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeec-CCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            58999999999999999998755432322333333333333222 2257899999994321       112234568899


Q ss_pred             EEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946           78 GIIIVYDVTDQE--SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus        78 ~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      ++++++|.....  .+.....|+...... ..+.|+++|+||+|+.+...  .++..+.....+.+++++||++|.|+++
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhhcccccccccchhhhhhhhhccccc-cchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            999999987532  233333333322211 12579999999999965432  3444555566688999999999999999


Q ss_pred             HHHHHHHHHHH
Q 043946          156 AFMAMTADIKN  166 (198)
Q Consensus       156 ~~~~l~~~~~~  166 (198)
                      +++.|.+.+.+
T Consensus       159 L~~~i~~~l~~  169 (180)
T d1udxa2         159 LKEALHALVRS  169 (180)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99999888753

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=5e-26  Score=156.09  Aligned_cols=150  Identities=22%  Similarity=0.283  Sum_probs=109.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc--------cccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR--------TITSSYYR   74 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~   74 (198)
                      +||+++|.+|||||||+|+|++.... ....++...+.....+...+  ..+.+||++|.....        .....++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            69999999999999999999976543 23334444445555666666  678899999954332        11334578


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      .+|++++++|..+...+.....|...+... ..+.|+++|+||+|+......       +.+..+.+++++||++|.|++
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~-~~~~~iilv~NK~Dl~~~~~~-------~~~~~~~~~~~iSAk~~~gi~  151 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARL-PAKLPITVVRNKADITGETLG-------MSEVNGHALIRLSARTGEGVD  151 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHS-CTTCCEEEEEECHHHHCCCCE-------EEEETTEEEEECCTTTCTTHH
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhc-ccccceeeccchhhhhhhHHH-------HHHhCCCcEEEEECCCCCCHH
Confidence            899999999999887766666665555544 446899999999998654321       111234689999999999999


Q ss_pred             HHHHHHHHH
Q 043946          155 QAFMAMTAD  163 (198)
Q Consensus       155 ~~~~~l~~~  163 (198)
                      +++++|.+.
T Consensus       152 ~L~~~l~~~  160 (161)
T d2gj8a1         152 VLRNHLKQS  160 (161)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhh
Confidence            999999875

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.92  E-value=6.8e-25  Score=153.03  Aligned_cols=159  Identities=15%  Similarity=0.154  Sum_probs=106.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCc-------ccceeeeEEEEEEECCeEEEEEEEeCCCccccccccccccc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYI-------STIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYR   74 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   74 (198)
                      ..++|+++|.+|+|||||+|+|++........       ...+.......+...+  ..+.++|++|+..+.......+.
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~l~   81 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAAD   81 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhhhh
Confidence            35899999999999999999998533211111       1111122223333444  67889999999988888888899


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHHHh----CCcEEEEecc
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETAKAFADEI----GIPFMETSAK  148 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~~~----~~~~~~~S~~  148 (198)
                      .+|++++|+|+.++....... .+..+..   .++|+++|+||+|+.......  .+..+.+.+..    +.+++++||+
T Consensus        82 ~~d~~ilv~d~~~g~~~~~~~-~~~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~  157 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQTGE-HMLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAK  157 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHHHH-HHHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTT
T ss_pred             hccccccccccccccchhhhh-hhhhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcc
Confidence            999999999999754322222 2222222   378999999999987543211  11222222221    3589999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 043946          149 DSLNVEQAFMAMTADIKN  166 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~~~  166 (198)
                      +|.|++++++.|.+.+.+
T Consensus       158 ~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         158 TGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TCTTHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHhcCCc
Confidence            999999999999988765

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.92  E-value=2.2e-24  Score=151.99  Aligned_cols=156  Identities=24%  Similarity=0.257  Sum_probs=114.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|..|||||||+++|....++..     +  .....+....  +.+.+||++|++.+...+..+++.++++++|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~-----~--~~~~~~~~~~--~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGT-----G--IVETHFTFKD--LHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCC-----S--EEEEEEEETT--EEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCc-----c--EEEEEEEeee--eeeeeeccccccccccchhhcccCCceeeeE
Confidence            58999999999999999999987655322     2  2233445555  7899999999999999999999999999999


Q ss_pred             EECCChhhH-----------HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC---------------CcCCHHHHHH-HH
Q 043946           83 YDVTDQESF-----------NNVKQWLNEIDRYASENVNKLLVGNKCDLTDK---------------KVVSYETAKA-FA  135 (198)
Q Consensus        83 ~d~~~~~s~-----------~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~---------------~~~~~~~~~~-~~  135 (198)
                      +|.++..++           .....|...+......+.|+++++||+|+...               ......+... +.
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQ  152 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHH
Confidence            999887654           33344555565555567899999999996311               1112222221 11


Q ss_pred             HHh----------CCcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          136 DEI----------GIPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       136 ~~~----------~~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ...          .+.++++||+++.||+++|+.+.+.+.++
T Consensus       153 ~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         153 CQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             HHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence            111          23467899999999999999998888754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.92  E-value=3.4e-24  Score=151.59  Aligned_cols=160  Identities=21%  Similarity=0.190  Sum_probs=123.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIV   82 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v   82 (198)
                      .+||+++|..|||||||+++|....+  .+.||.+...  ..+....  +.+.+||++|++.+...|..++..+++++++
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~--~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIE--YPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEE--EEEECSS--CEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEE--EEEeccc--eeeeeccccccccccccccccccccceeeEe
Confidence            58999999999999999999987766  4567776443  3344444  7899999999999999999999999999999


Q ss_pred             EECCChh-----------hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC----------------CcCCHHHHHHHH
Q 043946           83 YDVTDQE-----------SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDK----------------KVVSYETAKAFA  135 (198)
Q Consensus        83 ~d~~~~~-----------s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~----------------~~~~~~~~~~~~  135 (198)
                      +|.++..           .++....|...+......+.|+++++||.|+...                .....+....+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  155 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFI  155 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHH
Confidence            9998753           3556677888887766678999999999997421                112233333332


Q ss_pred             HHh----------CCcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          136 DEI----------GIPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       136 ~~~----------~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      ...          .+.++++||++|.||+++|+.|.+.+.++.
T Consensus       156 ~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~n  198 (200)
T d2bcjq2         156 LKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  198 (200)
T ss_dssp             HHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHHh
Confidence            211          134789999999999999999998887643

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=2.6e-24  Score=148.96  Aligned_cols=156  Identities=19%  Similarity=0.192  Sum_probs=100.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCC-CCCcccceeeeEEEEEEECCeEEEEEEEeCCCccc---------cccccccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYL-DSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER---------FRTITSSYYR   74 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~~   74 (198)
                      .|+|+|++|||||||+|+|++.... ....+..+.......+...+  ..+.+||++|...         +......++.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccc--cccccccccceeeeeccccccccccccccccc
Confidence            6899999999999999999975532 12222223333334455555  6789999999422         1223344578


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHH
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVE  154 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~  154 (198)
                      .+|++++++|........ ...+...+...   ++|+++|+||+|+....  ..+...++.+.....++++||++|.|++
T Consensus        80 ~ad~i~~~~~~~~~~~~~-~~~~~~~l~~~---~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKE-DESLADFLRKS---TVDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             TCSEEEEEEETTTCCCHH-HHHHHHHHHHH---TCCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSHH
T ss_pred             cCcEEEEeeccccccccc-ccccccccccc---cccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCHH
Confidence            899999999987654332 23444445443   67999999999985321  1222222222223467999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 043946          155 QAFMAMTADIKNRM  168 (198)
Q Consensus       155 ~~~~~l~~~~~~~~  168 (198)
                      +++++|.+.+.+..
T Consensus       154 ~L~~~i~~~l~e~~  167 (171)
T d1mkya1         154 TMLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCC
Confidence            99999999887643

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.91  E-value=1.2e-23  Score=146.90  Aligned_cols=155  Identities=22%  Similarity=0.303  Sum_probs=111.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      ...||+++|.+|||||||+++|.+..+... .++.+.+  ...+..++  ..+.+||+.+...+...+..++...+++++
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~--~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   86 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccc--eeEEEecc--cccccccccchhhhhhHHhhhhcccceeee
Confidence            468999999999999999999998776533 3333322  23445566  578899999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHH-HHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----------------CCcEE
Q 043946           82 VYDVTDQESFNNVKQWLNEI-DRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----------------GIPFM  143 (198)
Q Consensus        82 v~d~~~~~s~~~~~~~~~~~-~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----------------~~~~~  143 (198)
                      ++|..+...+.....+.... ......+.|+++++||.|++..  ....++.......                 ++.++
T Consensus        87 ~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (186)
T d1f6ba_          87 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEVF  164 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEE
T ss_pred             eeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEE
Confidence            99999988877666544333 3334467999999999998653  3455555443322                 23589


Q ss_pred             EEeccCCCCHHHHHHHHHHH
Q 043946          144 ETSAKDSLNVEQAFMAMTAD  163 (198)
Q Consensus       144 ~~S~~~~~~i~~~~~~l~~~  163 (198)
                      ++||++|.|++|+|+||.+.
T Consensus       165 ~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         165 MCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             ECBTTTTBSHHHHHHHHHTT
T ss_pred             EEeCCCCCCHHHHHHHHHHh
Confidence            99999999999999999864

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=4.5e-24  Score=146.09  Aligned_cols=149  Identities=23%  Similarity=0.239  Sum_probs=102.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc---------ccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR---------TITSSYY   73 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~   73 (198)
                      |||+++|.+|||||||+|+|.+... .....+..+.......+...+  ..+.+||+||.....         ......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            7999999999999999999987542 223334444444445566666  678999999943211         1122235


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCH
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNV  153 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i  153 (198)
                      ..+|++++|+|++++........+.    ..  ...++++++||.|+.+..  ..+++.... ..+.+++++||++|.|+
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~----~~--~~~~~i~~~~k~d~~~~~--~~~~~~~~~-~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILE----RI--KNKRYLVVINKVDVVEKI--NEEEIKNKL-GTDRHMVKISALKGEGL  149 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHH----HH--TTSSEEEEEEECSSCCCC--CHHHHHHHH-TCSTTEEEEEGGGTCCH
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhh----hc--ccccceeeeeeccccchh--hhHHHHHHh-CCCCcEEEEECCCCCCH
Confidence            7799999999999876543332221    11  257899999999997643  334433221 23468999999999999


Q ss_pred             HHHHHHHHHH
Q 043946          154 EQAFMAMTAD  163 (198)
Q Consensus       154 ~~~~~~l~~~  163 (198)
                      ++++++|.+.
T Consensus       150 ~~L~~~I~ke  159 (160)
T d1xzpa2         150 EKLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998763

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=1.3e-23  Score=147.19  Aligned_cols=159  Identities=25%  Similarity=0.226  Sum_probs=105.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC-CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc------------cccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD-SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF------------RTIT   69 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------------~~~~   69 (198)
                      .+||+|+|.+|||||||+|+|++..... ...+..+.......+..++  ..+.++|+||....            ....
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSNYRV   85 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCSCCHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccchhHHH
Confidence            5899999999999999999999765321 1222222233334455666  56788899985432            1223


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh-----CCcEEE
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI-----GIPFME  144 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~  144 (198)
                      ...+..+|++++|+|++.+.. .....+...+..   .+.|+++|+||+|+.........+..+.....     .+++++
T Consensus        86 ~~~~~~~dvii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  161 (186)
T d1mkya2          86 VDSIEKADVVVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIF  161 (186)
T ss_dssp             HHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEE
T ss_pred             HHHHhcCCEEEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEE
Confidence            334577999999999986533 122333333333   36899999999998755444444444443332     258999


Q ss_pred             EeccCCCCHHHHHHHHHHHHHHh
Q 043946          145 TSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      +||++|.|+++++++|.+.+.++
T Consensus       162 vSa~~g~gv~~L~~~i~~~~~~~  184 (186)
T d1mkya2         162 TSADKGWNIDRMIDAMNLAYASY  184 (186)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHHHhC
Confidence            99999999999999998877664

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.91  E-value=2.5e-23  Score=145.44  Aligned_cols=154  Identities=18%  Similarity=0.168  Sum_probs=99.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc---------------cccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF---------------RTIT   69 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------------~~~~   69 (198)
                      .|+++|.+|||||||+|+|.+........++.+.+  ...+...+    +.+||+||....               ....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~--~~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec--cccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            58999999999999999999876544444433322  33444444    578999994211               1122


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHH-------HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC---
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQ-------WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG---  139 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~-------~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~---  139 (198)
                      ...++.+|++++|+|+...........       ....+......+.|+++|+||+|+....   ......+.....   
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~~---~~~~~~~~~~~~~~~  152 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPL  152 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCG
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhhhH---HHHHHHHHHHhcccc
Confidence            334577999999999975432211110       0111222222378999999999986432   122222333332   


Q ss_pred             ----CcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          140 ----IPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       140 ----~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                          ..++++||++|.|+++++++|.+.+.++
T Consensus       153 ~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         153 SEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             GGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             cccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence                2488999999999999999999988763

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=1.3e-23  Score=148.64  Aligned_cols=160  Identities=20%  Similarity=0.253  Sum_probs=109.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|.+|||||||+++|.   +...+.||.+.  ....+...+  ..+.+||++|++.+...+..+++.++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~--~~~~~~~~~--~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~   73 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGI--HEYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILF   73 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSE--EEEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeee--EEEEEeeee--eeeeeecccceeeecccccccccccceeEE
Confidence            46899999999999999999994   33456677764  344555666  789999999999999999999999999999


Q ss_pred             EEECCChhh----------HHHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCC----------------CcCCHHHHHHH
Q 043946           82 VYDVTDQES----------FNNVKQWL-NEIDRYASENVNKLLVGNKCDLTDK----------------KVVSYETAKAF  134 (198)
Q Consensus        82 v~d~~~~~s----------~~~~~~~~-~~~~~~~~~~~p~iiv~nK~D~~~~----------------~~~~~~~~~~~  134 (198)
                      ++|.++...          +.....++ ..+......+.|+++++||.|+.+.                .....+.+.++
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (200)
T d1zcba2          74 LVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKF  153 (200)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHH
T ss_pred             EEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHH
Confidence            999987432          33333333 3333334467999999999997421                01122333332


Q ss_pred             HHHh-----------CCcEEEEeccCCCCHHHHHHHHHHHHHHhh
Q 043946          135 ADEI-----------GIPFMETSAKDSLNVEQAFMAMTADIKNRM  168 (198)
Q Consensus       135 ~~~~-----------~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~  168 (198)
                      ....           .+.++++||+++.||+++|+.+.+.+.+..
T Consensus       154 ~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~~  198 (200)
T d1zcba2         154 LVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  198 (200)
T ss_dssp             HHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHHh
Confidence            2211           134568999999999999999988877643

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.89  E-value=5.1e-23  Score=148.51  Aligned_cols=163  Identities=15%  Similarity=0.116  Sum_probs=104.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEE----------------ECCeEEEEEEEeCCCcccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVE----------------QDGKTVKLQIWDTAGQERFRT   67 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~i~D~~g~~~~~~   67 (198)
                      ..|+|+|.+++|||||+++|++...........+.........                +.....++.++||||+..|..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            3499999999999999999985322111111111111111111                122235788999999999988


Q ss_pred             cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC-------------H------
Q 043946           68 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS-------------Y------  128 (198)
Q Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~-------------~------  128 (198)
                      .....+..+|++|+|+|+.++-.... ...+..+..   .++|+++++||+|+.+.....             .      
T Consensus        86 ~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~  161 (227)
T d1g7sa4          86 LRKRGGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKL  161 (227)
T ss_dssp             SBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHH
T ss_pred             cchhcccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHH
Confidence            88888999999999999987533222 233333333   378999999999987543211             0      


Q ss_pred             -HHHHHHHH---Hh---------------CCcEEEEeccCCCCHHHHHHHHHHHHHHhhhc
Q 043946          129 -ETAKAFAD---EI---------------GIPFMETSAKDSLNVEQAFMAMTADIKNRMAS  170 (198)
Q Consensus       129 -~~~~~~~~---~~---------------~~~~~~~S~~~~~~i~~~~~~l~~~~~~~~~~  170 (198)
                       ....+...   ..               .++++++||++|.|++++++.|.....+.+.+
T Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~~  222 (227)
T d1g7sa4         162 DTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLRE  222 (227)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCSG
T ss_pred             HHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHHH
Confidence             01111111   00               13689999999999999999998877665543

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.88  E-value=3.7e-23  Score=144.79  Aligned_cols=157  Identities=18%  Similarity=0.167  Sum_probs=98.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc----cc---ccccccCcc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR----TI---TSSYYRGAH   77 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~---~~~~~~~~d   77 (198)
                      +|+|+|.+|||||||+|+|.+........+..+.+.........+. ..+.+||+||.....    .+   ....+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            6899999999999999999875543222333333333333333322 468899999953211    11   122345688


Q ss_pred             EEEEEEECCChhhHHHHHH-----HHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh--CCcEEEEeccCC
Q 043946           78 GIIIVYDVTDQESFNNVKQ-----WLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI--GIPFMETSAKDS  150 (198)
Q Consensus        78 ~~i~v~d~~~~~s~~~~~~-----~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~S~~~~  150 (198)
                      .++++++............     ...........++|+++|+||+|+.+.    .+..+.+....  +.+++.+||++|
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~----~~~~~~~~~~~~~~~~v~~iSA~~g  157 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVTR  157 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhH----HHHHHHHHHHhccCCcEEEEECCCC
Confidence            8888888765432221111     111111222246899999999998643    23334444444  568899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 043946          151 LNVEQAFMAMTADIKN  166 (198)
Q Consensus       151 ~~i~~~~~~l~~~~~~  166 (198)
                      .|+++++++|.+.+.+
T Consensus       158 ~Gi~~L~~~i~~~L~~  173 (185)
T d1lnza2         158 EGLRELLFEVANQLEN  173 (185)
T ss_dssp             STTHHHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHhhhh
Confidence            9999999999887743

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=1.7e-21  Score=138.59  Aligned_cols=118  Identities=21%  Similarity=0.341  Sum_probs=85.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc-ccccccccCccEEEEEE
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR-TITSSYYRGAHGIIIVY   83 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~~i~v~   83 (198)
                      +|+++|++|||||||+++|.++.+... .++.+.+.....+. .+....+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEECS-STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEEe-eeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            589999999999999999998777554 34444444433332 3344789999999998774 56778889999999999


Q ss_pred             ECCChhhH-HHHHHH-HHHHHHh--cCCCCcEEEEEeCCCCCCCC
Q 043946           84 DVTDQESF-NNVKQW-LNEIDRY--ASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        84 d~~~~~s~-~~~~~~-~~~~~~~--~~~~~p~iiv~nK~D~~~~~  124 (198)
                      |+++..++ .....+ ...+...  ...+.|++|++||+|+++..
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            99997653 333333 3333322  23458999999999997643

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.87  E-value=1e-21  Score=138.50  Aligned_cols=153  Identities=17%  Similarity=0.153  Sum_probs=92.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc-------------ccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF-------------RTITS   70 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------------~~~~~   70 (198)
                      .+|+|+|.+|||||||+|+|.+...........+.+..........   .+.+.|++|....             .....
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYI  100 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhhhh
Confidence            4899999999999999999997543222222222222222233332   2445677663211             11223


Q ss_pred             ccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh----CCcEEEEe
Q 043946           71 SYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI----GIPFMETS  146 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~----~~~~~~~S  146 (198)
                      .....+|++++|+|+..+.. .....+++.+..   .++|+++|+||+|+.+.... .+..+.+.+.+    ..+++++|
T Consensus       101 ~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~S  175 (195)
T d1svia_         101 TTREELKAVVQIVDLRHAPS-NDDVQMYEFLKY---YGIPVIVIATKADKIPKGKW-DKHAKVVRQTLNIDPEDELILFS  175 (195)
T ss_dssp             HHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEECGGGSCGGGH-HHHHHHHHHHHTCCTTSEEEECC
T ss_pred             ccccchhhhhhhhhcccccc-cccccccccccc---ccCcceechhhccccCHHHH-HHHHHHHHHHhcccCCCCEEEEe
Confidence            44567899999999976432 122334444443   36899999999998654322 22233333333    34789999


Q ss_pred             ccCCCCHHHHHHHHHHHH
Q 043946          147 AKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       147 ~~~~~~i~~~~~~l~~~~  164 (198)
                      |++|.|+++++++|.+.+
T Consensus       176 A~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         176 SETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTTCTTHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999998876

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.87  E-value=1.8e-21  Score=137.25  Aligned_cols=160  Identities=18%  Similarity=0.219  Sum_probs=104.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCC---CCcccceeeeEEE--EEE-------------------ECCeEEEEEEEe
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLD---SYISTIGVDFKIR--TVE-------------------QDGKTVKLQIWD   58 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~---~~~~~~~~~~~~~--~~~-------------------~~~~~~~~~i~D   58 (198)
                      .++|+++|..++|||||+++|++.....   ......+......  .+.                   .......+.++|
T Consensus         5 ~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iD   84 (195)
T d1kk1a3           5 EVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFID   84 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEE
T ss_pred             cEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeec
Confidence            5799999999999999999998632211   1111111111111  111                   111235689999


Q ss_pred             CCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC--CHHHHHHHHH
Q 043946           59 TAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV--SYETAKAFAD  136 (198)
Q Consensus        59 ~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~  136 (198)
                      +||+..|.......+..+|++++|+|+.++.......+.+..+....  ..++++++||+|+.+....  ..+.+.++..
T Consensus        85 tPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~~~~  162 (195)
T d1kk1a3          85 APGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEFIE  162 (195)
T ss_dssp             CSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHT
T ss_pred             cchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHHHhc
Confidence            99999998888888899999999999988643233344444444432  2357888999998754321  1222333333


Q ss_pred             Hh---CCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          137 EI---GIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       137 ~~---~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ..   .++++++||++|.|++++++.|.+.+
T Consensus       163 ~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         163 GTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             TSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            32   26899999999999999999987643

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.86  E-value=6.4e-22  Score=142.16  Aligned_cols=158  Identities=22%  Similarity=0.202  Sum_probs=114.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccccccCccEEEE
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIII   81 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~   81 (198)
                      +.+||+++|..|||||||+++|....+    .||.+  .....+.+++  +.+.+||++|++.+...|..+++.++++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG--~~~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~   76 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSG--IFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIF   76 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCS--CEEEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCC--eEEEEEEECc--EEEEEEecCccceeccchhhhcccccceEE
Confidence            468999999999999999999976543    35655  4445566777  789999999999999999999999999999


Q ss_pred             EEECCChh----------h-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc----C--------------------
Q 043946           82 VYDVTDQE----------S-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV----V--------------------  126 (198)
Q Consensus        82 v~d~~~~~----------s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~----~--------------------  126 (198)
                      ++|.++.+          . .+....|...+......+.|+++++||+|+.+...    .                    
T Consensus        77 v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~  156 (221)
T d1azta2          77 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  156 (221)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCC
T ss_pred             EEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccc
Confidence            99988532          2 23334455555444446799999999999853210    0                    


Q ss_pred             ------CHHHHHHHH-----HHhC--------CcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          127 ------SYETAKAFA-----DEIG--------IPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       127 ------~~~~~~~~~-----~~~~--------~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                            ....+..+.     ....        +-...+||.++.+|+.+|..+.+.+.+.
T Consensus       157 ~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         157 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                  012222222     1111        2346899999999999999988777764

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.86  E-value=1.4e-21  Score=137.43  Aligned_cols=155  Identities=15%  Similarity=0.110  Sum_probs=105.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC----------------CCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD----------------SYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      .++|+++|..++|||||+++|+..                ....+....++.+.....+...+  ..+.++|+||+..|.
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~--~~~~~iDtPGh~~f~   80 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA--RHYAHTDCPGHADYV   80 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS--CEEEEEECSSHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEece--eeEEeecCcchHHHH
Confidence            489999999999999999999631                11223333444444444554444  678999999999998


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcC---CHHHHHHHHHHhC----
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVV---SYETAKAFADEIG----  139 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~----  139 (198)
                      ......+..+|++++|+|+.+.-.-+. .+.+..+....  ..|+|+++||+|+......   -..++..+....+    
T Consensus        81 ~~~~~~~~~aD~allVVda~~G~~~QT-~~~~~~a~~~~--~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~  157 (196)
T d1d2ea3          81 KNMITGTAPLDGCILVVAANDGPMPQT-REHLLLARQIG--VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGE  157 (196)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHTT--CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHHHHHhhcCeEEEEEEcCCCCchhH-HHHHHHHHHhc--CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcc
Confidence            888888899999999999997533222 23333333322  3578999999998653221   1223444554444    


Q ss_pred             -CcEEEEeccCC----------CCHHHHHHHHHH
Q 043946          140 -IPFMETSAKDS----------LNVEQAFMAMTA  162 (198)
Q Consensus       140 -~~~~~~S~~~~----------~~i~~~~~~l~~  162 (198)
                       ++++++|+++|          .++.++|+.|.+
T Consensus       158 ~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         158 ETPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             TSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             cCEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence             57999999998          477887777654

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.85  E-value=1.1e-20  Score=134.21  Aligned_cols=160  Identities=16%  Similarity=0.208  Sum_probs=100.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCC---CCCcccceeee--EEEEEEE------------------------CCeEEE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYL---DSYISTIGVDF--KIRTVEQ------------------------DGKTVK   53 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~---~~~~~~~~~~~--~~~~~~~------------------------~~~~~~   53 (198)
                      .++|+++|..++|||||+++|++....   .........+.  ....+..                        ......
T Consensus         8 ~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~   87 (205)
T d2qn6a3           8 EVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRR   87 (205)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEE
T ss_pred             CeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceEE
Confidence            379999999999999999999852211   00000000000  0111100                        112346


Q ss_pred             EEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHH
Q 043946           54 LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETA  131 (198)
Q Consensus        54 ~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~  131 (198)
                      +.++|+||+.+|.......+..+|++|+|+|+.++-.-....+.+..+... + -.|++|++||+|+.+.....  ..+.
T Consensus        88 ~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~-i~~iIV~vNK~Dl~~~~~~~~~~~~~  165 (205)
T d2qn6a3          88 ISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-G-VKNLIIVQNKVDVVSKEEALSQYRQI  165 (205)
T ss_dssp             EEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-T-CCCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             EEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-C-CceeeeccccCCCccchHHHHHHHHH
Confidence            899999999999887888888999999999998753112223333333332 1 24889999999997543211  1122


Q ss_pred             HHHHHHh---CCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          132 KAFADEI---GIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       132 ~~~~~~~---~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ..+....   .++++++||++|.|++++++.|.+.+
T Consensus       166 ~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         166 KQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            2222222   36899999999999999999877653

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.83  E-value=7.6e-21  Score=134.61  Aligned_cols=142  Identities=15%  Similarity=0.122  Sum_probs=95.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--------CC---------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--------SY---------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      .++|+++|+.++|||||+++|+..        +.         +++.....+.+.....+.+++  .++.++||||+..|
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~df   80 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHADY   80 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGGG
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchhh
Confidence            489999999999999999999621        00         011112344555666666766  67889999999999


Q ss_pred             cccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcC---CHHHHHHHHHHhC--
Q 043946           66 RTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVV---SYETAKAFADEIG--  139 (198)
Q Consensus        66 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~---~~~~~~~~~~~~~--  139 (198)
                      .......+..+|++|+|+|+.++...+.... +..+...   ++| +++++||+|+.+..+.   ..+++..+....+  
T Consensus        81 ~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~-~~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~  156 (204)
T d2c78a3          81 IKNMITGAAQMDGAILVVSAADGPMPQTREH-ILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFP  156 (204)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCHHHHHH-HHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcHHHHHH-HHHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCC
Confidence            8888889999999999999988655433333 3333332   555 6778999998653221   1223444444433  


Q ss_pred             ---CcEEEEeccCC
Q 043946          140 ---IPFMETSAKDS  150 (198)
Q Consensus       140 ---~~~~~~S~~~~  150 (198)
                         +++++.|+..+
T Consensus       157 ~~~i~~i~~sa~~~  170 (204)
T d2c78a3         157 GDEVPVIRGSALLA  170 (204)
T ss_dssp             TTTSCEEECCHHHH
T ss_pred             cccceeeeeechhh
Confidence               46888887643

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.82  E-value=4e-20  Score=128.34  Aligned_cols=154  Identities=18%  Similarity=0.171  Sum_probs=98.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCC-cccceeeeEEEEEEECCeEEEEEEEeCCCccc---------ccccccccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSY-ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQER---------FRTITSSYY   73 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~   73 (198)
                      =.|+|+|.+|||||||+|+|.+....... .++............+.  ..+..+|++|...         .........
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASSSI   83 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccccch
Confidence            35899999999999999999976533222 22222222223333444  4566788887432         122333445


Q ss_pred             cCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC-CcEEEEeccCCCC
Q 043946           74 RGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG-IPFMETSAKDSLN  152 (198)
Q Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~  152 (198)
                      ..+++++++.|..+...  ....+...+.   ....|.++++||.|............+.+....+ .+++++||++|.|
T Consensus        84 ~~~~~~l~~~d~~~~~~--~~~~~~~~l~---~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~g  158 (179)
T d1egaa1          84 GDVELVIFVVEGTRWTP--DDEMVLNKLR---EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLN  158 (179)
T ss_dssp             CCEEEEEEEEETTCCCH--HHHHHHHHHH---SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTT
T ss_pred             hhcceeEEEEecCccch--hHHHHHHHhh---hccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCC
Confidence            67889999999876332  1122222222   3357899999999987653322344444555555 4899999999999


Q ss_pred             HHHHHHHHHHHH
Q 043946          153 VEQAFMAMTADI  164 (198)
Q Consensus       153 i~~~~~~l~~~~  164 (198)
                      +++++++|.+.+
T Consensus       159 i~~L~~~i~~~l  170 (179)
T d1egaa1         159 VDTIAAIVRKHL  170 (179)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC
Confidence            999999987755

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.80  E-value=2.8e-19  Score=127.77  Aligned_cols=147  Identities=21%  Similarity=0.211  Sum_probs=96.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc--CCCCC-------------------------------CCcccceeeeEEEEEEEC
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD--DSYLD-------------------------------SYISTIGVDFKIRTVEQD   48 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~--~~~~~-------------------------------~~~~~~~~~~~~~~~~~~   48 (198)
                      ..+||+++|..++|||||+++|+.  +....                               +...+.+.+.....+...
T Consensus         8 ~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~~   87 (222)
T d1zunb3           8 EMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTA   87 (222)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECS
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEecc
Confidence            468999999999999999999963  11100                               111122333333344444


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCCCcCC
Q 043946           49 GKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENV-NKLLVGNKCDLTDKKVVS  127 (198)
Q Consensus        49 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p~iiv~nK~D~~~~~~~~  127 (198)
                      +  ..+.++|+||+..|.......+..+|++|+|+|+.+.-.-+.. +.+..+...   ++ .+++++||+|+.+..+..
T Consensus        88 ~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~-e~~~~~~~~---gv~~iiv~vNK~D~~~~~~~~  161 (222)
T d1zunb3          88 K--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTR-RHSYIASLL---GIKHIVVAINKMDLNGFDERV  161 (222)
T ss_dssp             S--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHH-HHHHHHHHT---TCCEEEEEEECTTTTTSCHHH
T ss_pred             c--eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchH-HHHHHHHHc---CCCEEEEEEEcccccccccee
Confidence            4  6789999999999988888889999999999999875432222 222223222   44 478889999998644322


Q ss_pred             H----HHHHHHHHHhC-----CcEEEEeccCCCCHH
Q 043946          128 Y----ETAKAFADEIG-----IPFMETSAKDSLNVE  154 (198)
Q Consensus       128 ~----~~~~~~~~~~~-----~~~~~~S~~~~~~i~  154 (198)
                      .    +++..+....+     ++++++||.+|.|+.
T Consensus       162 ~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         162 FESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             hhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            2    23344444444     367999999999884

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.79  E-value=3.2e-19  Score=126.59  Aligned_cols=117  Identities=21%  Similarity=0.327  Sum_probs=82.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccccccccc----cccCcc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTITSS----YYRGAH   77 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~----~~~~~d   77 (198)
                      |..+|+++|++|||||||+|+|.+..+.    ++.+.......+..++  ..+.+||+||++.+...+..    ....++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~----~~tt~~~~~~~~~~~~--~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLSAADYDG--SGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCC----CBCCCSSCEEETTGGG--SSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEecceEEEEEeCC--eEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            6679999999999999999999987654    3333333333444444  56899999998866544433    345668


Q ss_pred             EEEEEEECCC-hhhHHHHHHH----HHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           78 GIIIVYDVTD-QESFNNVKQW----LNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        78 ~~i~v~d~~~-~~s~~~~~~~----~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      .+++++|+.+ ..++.....|    ...+......+.|+++|+||+|+.+..
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccC
Confidence            9999999775 4444444443    344455566789999999999997643

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.77  E-value=9.5e-19  Score=121.87  Aligned_cols=158  Identities=14%  Similarity=0.065  Sum_probs=83.0

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceee-eEEEEEEECCeEEEEEEEeCCCcccc----------cccc
Q 043946            1 DYLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVD-FKIRTVEQDGKTVKLQIWDTAGQERF----------RTIT   69 (198)
Q Consensus         1 ~~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~----------~~~~   69 (198)
                      |..++|+++|.+|||||||+|+|.+...........+.. .........+ ...+..++.++....          ....
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADG-KRLVDLPGYGYAEVPEEMKRKWQRALGEY   92 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETT-EEEEECCCCC------CCHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccc-cceeeeecccccchhhhhhhhhhhhhhhh
Confidence            457899999999999999999998765432222222212 2222222233 122222222221111          1111


Q ss_pred             cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHH---h--CCcEEE
Q 043946           70 SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADE---I--GIPFME  144 (198)
Q Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~---~--~~~~~~  144 (198)
                      .......+.++.+.+....... ....+...+..   ...++++++||+|+.+.... ....+.+.+.   .  ..++++
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~i~  167 (188)
T d1puia_          93 LEKRQSLQGLVVLMDIRHPLKD-LDQQMIEWAVD---SNIAVLVLLTKADKLASGAR-KAQLNMVREAVLAFNGDVQVET  167 (188)
T ss_dssp             HHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHH---TTCCEEEEEECGGGSCHHHH-HHHHHHHHHHHGGGCSCEEEEE
T ss_pred             hhhhhheeEEEEeecccccchh-HHHHHHHHhhh---ccccccchhhhhhccCHHHH-HHHHHHHHHHHHhhCCCCcEEE
Confidence            2223445566666766654332 22333333322   36789999999998654322 1222222222   2  247899


Q ss_pred             EeccCCCCHHHHHHHHHHHH
Q 043946          145 TSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       145 ~S~~~~~~i~~~~~~l~~~~  164 (198)
                      +||++|.|+++++++|.+.+
T Consensus       168 vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         168 FSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             CBTTTTBSHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999986653

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.75  E-value=8e-19  Score=126.73  Aligned_cols=148  Identities=16%  Similarity=0.169  Sum_probs=102.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc--CCCC-----------------------------CCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD--DSYL-----------------------------DSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|+.++|||||+.+|+.  +...                             .+....++.+.....+.+.+  
T Consensus         6 ~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~--   83 (239)
T d1f60a3           6 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK--   83 (239)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS--
T ss_pred             ccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC--
Confidence            48999999999999999999963  1110                             01223445555666676766  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhH------HHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESF------NNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~  124 (198)
                      .++.|.|+||+.+|......-+..+|++|+|+|+.....-      ....+.+.....+   ++| +|+++||+|+.+..
T Consensus        84 ~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~---gv~~iiv~iNKmD~~~~d  160 (239)
T d1f60a3          84 YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSVKWD  160 (239)
T ss_dssp             EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGGTTC
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHc---CCCeEEEEEECCCCCCCC
Confidence            7899999999999998888999999999999999864210      0122222223332   455 78889999987644


Q ss_pred             cCCH----HHHHHHHHHhC-----CcEEEEeccCCCCHHH
Q 043946          125 VVSY----ETAKAFADEIG-----IPFMETSAKDSLNVEQ  155 (198)
Q Consensus       125 ~~~~----~~~~~~~~~~~-----~~~~~~S~~~~~~i~~  155 (198)
                      ....    +++..+....+     ++++++|+.+|.|+.+
T Consensus       161 ~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         161 ESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            3222    33444555554     5689999999988754

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.73  E-value=5.5e-18  Score=122.84  Aligned_cols=151  Identities=17%  Similarity=0.134  Sum_probs=83.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--CC-----------------------------CCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--SY-----------------------------LDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|+.++|||||+.+|+..  ..                             ..+.....+.+.....+...+  
T Consensus        24 ~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~--  101 (245)
T d1r5ba3          24 HVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH--  101 (245)
T ss_dssp             EEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS--
T ss_pred             ceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc--
Confidence            568999999999999999999531  10                             001111122222222333344  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHH------HHHHHHHHHHHhcCCCC-cEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFN------NVKQWLNEIDRYASENV-NKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~~~~~~~~~~-p~iiv~nK~D~~~~~  124 (198)
                      ..+.+.|+||+..|..........+|++++|+|+.+...-.      ...+.+..+...   ++ ++++++||+|++...
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~---~i~~iiv~iNKmD~~~~~  178 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ---GINHLVVVINKMDEPSVQ  178 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT---TCSSEEEEEECTTSTTCS
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc---CCCeEEEEEEcCCCCccc
Confidence            67899999999999988888999999999999998742110      112222223222   34 578899999987432


Q ss_pred             c--CCH----HHHHHHHHHh-------CCcEEEEeccCCCCHHHHHH
Q 043946          125 V--VSY----ETAKAFADEI-------GIPFMETSAKDSLNVEQAFM  158 (198)
Q Consensus       125 ~--~~~----~~~~~~~~~~-------~~~~~~~S~~~~~~i~~~~~  158 (198)
                      .  ...    +++..+..+.       .++++++||++|+|+.++++
T Consensus       179 ~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         179 WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             hhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            1  111    2223332332       24789999999999977643

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.73  E-value=4.2e-17  Score=119.07  Aligned_cols=111  Identities=15%  Similarity=0.228  Sum_probs=83.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC--CCCC----------------CCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD--SYLD----------------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~--~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+|+|+.++|||||+.+|+..  ....                +.....+.......+.+.+  .++.++||||+.+|.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGGH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhhh
Confidence            5899999999999999999631  1110                0112335555667777887  679999999999999


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      ......+..+|++|+|+|+.++-.......|. .+..   .++|.++++||+|..
T Consensus        82 ~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~-~~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          82 GEIRGALEAADAALVAVSAEAGVQVGTERAWT-VAER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH-HHHH---TTCCEEEEEECGGGC
T ss_pred             hhhhhhhcccCceEEEeeccCCccchhHHHHH-hhhh---ccccccccccccccc
Confidence            88999999999999999999865544444443 2333   378999999999974

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.73  E-value=3.6e-17  Score=119.71  Aligned_cols=131  Identities=16%  Similarity=0.212  Sum_probs=93.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc--CCC----------------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD--DSY----------------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      +|+++|+.++|||||+.+|+.  +..                +.+.....+.......+.+.+  .+++++||||+.+|.
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSSSCS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchhhhH
Confidence            699999999999999999963  111                112222344555566777777  789999999999999


Q ss_pred             ccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEE
Q 043946           67 TITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFM  143 (198)
Q Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  143 (198)
                      ......+..+|++|+|+|+.+.-......-|. ..   ...++|.++++||+|....+  ..+.+.++-..++...+
T Consensus        86 ~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~-~a---~~~~lP~i~fINKmDr~~ad--~~~~l~ei~~~l~~~~v  156 (276)
T d2bv3a2          86 IEVERSMRVLDGAIVVFDSSQGVEPQSETVWR-QA---EKYKVPRIAFANKMDKTGAD--LWLVIRTMQERLGARPV  156 (276)
T ss_dssp             TTHHHHHHHCCEEEEEEETTTSSCHHHHHHHH-HH---HTTTCCEEEEEECTTSTTCC--HHHHHHHHHHTTCCCEE
T ss_pred             HHHHHHHHhhhheEEeccccCCcchhHHHHHH-HH---HHcCCCEEEEEecccccccc--cchhHHHHHHHhCCCeE
Confidence            99999999999999999999865544334443 22   33489999999999986543  24445555566665443

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.72  E-value=2.6e-18  Score=123.30  Aligned_cols=149  Identities=19%  Similarity=0.238  Sum_probs=94.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC--CC-----------------------------CCCCcccceeeeEEEEEEECCeE
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD--SY-----------------------------LDSYISTIGVDFKIRTVEQDGKT   51 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~   51 (198)
                      .++|+++|..++|||||+.+|+..  ..                             ..+.....+.......++.++  
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~--   80 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK--   80 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS--
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCC--
Confidence            479999999999999999998531  00                             011122223333334444444  


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHH------HHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCc
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFN------NVKQWLNEIDRYASENVNKLLVGNKCDLTDKKV  125 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~  125 (198)
                      +.+.++|+||+..|.......+..+|++|+|+|+.+...-.      ...+.+...... . ..++|+++||+|+.....
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~-~-~~~iIv~iNK~D~~~~~~  158 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-G-LDQLIVAVNKMDLTEPPY  158 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-T-CTTCEEEEECGGGSSSTT
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh-C-CCceEEEEEcccCCCccc
Confidence            78999999999999999999999999999999999853211      112222222222 2 246888999999865321


Q ss_pred             C--CH----HHHHHHHHHhC-----CcEEEEeccCCCCHHH
Q 043946          126 V--SY----ETAKAFADEIG-----IPFMETSAKDSLNVEQ  155 (198)
Q Consensus       126 ~--~~----~~~~~~~~~~~-----~~~~~~S~~~~~~i~~  155 (198)
                      .  ..    .++..+...++     ++++++||..|.|+.+
T Consensus       159 ~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         159 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            1  11    22334444443     4689999999998854

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=5.6e-16  Score=119.77  Aligned_cols=157  Identities=15%  Similarity=0.177  Sum_probs=91.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCCCCCCccc---ceeeeEEEEEEECCeEEEEEEEeCCCcccccc-----ccccccc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSYLDSYIST---IGVDFKIRTVEQDGKTVKLQIWDTAGQERFRT-----ITSSYYR   74 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~~   74 (198)
                      +++|+|+|.+|||||||+|+|.+..........   .+++.....+...+. -.+.+|||||......     +....+.
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~-~~~~l~DtPG~~~~~~~~~~~~~~~~~~  134 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNI-PNVVFWDLPGIGSTNFPPDTYLEKMKFY  134 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSC-TTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCC-CeEEEEeCCCcccccccHHHHHHHhhhh
Confidence            689999999999999999999974432221111   112222223333221 2478999999653321     1222356


Q ss_pred             CccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-------CCcCCHH----HHH----HHHHHhC
Q 043946           75 GAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTD-------KKVVSYE----TAK----AFADEIG  139 (198)
Q Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~-------~~~~~~~----~~~----~~~~~~~  139 (198)
                      .+|.++++.|..-...-   ......+..   .++|+++|+||+|...       ......+    +++    ......+
T Consensus       135 ~~d~~l~~~~~~~~~~d---~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~  208 (400)
T d1tq4a_         135 EYDFFIIISATRFKKND---IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENG  208 (400)
T ss_dssp             GCSEEEEEESSCCCHHH---HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             cceEEEEecCCCCCHHH---HHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcC
Confidence            78988888775432221   223333433   3789999999999631       1111222    222    2223334


Q ss_pred             C---cEEEEeccC--CCCHHHHHHHHHHHHHH
Q 043946          140 I---PFMETSAKD--SLNVEQAFMAMTADIKN  166 (198)
Q Consensus       140 ~---~~~~~S~~~--~~~i~~~~~~l~~~~~~  166 (198)
                      +   +++.+|..+  ..++.++.++|.+.+.+
T Consensus       209 ~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         209 IAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             CSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             CCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            3   578888765  45899999999887654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.61  E-value=1.2e-14  Score=105.97  Aligned_cols=124  Identities=15%  Similarity=0.126  Sum_probs=77.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCC-cccceeeeEEEEEEECCeEEEEEEEeCCCccccccc-------cc--c
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSY-ISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFRTI-------TS--S   71 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~--~   71 (198)
                      ..++|+++|.+|||||||+|.+++....... .+..+.......+..++  ..+.++||||..+....       ..  .
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~~  108 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFL  108 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHHH
Confidence            3589999999999999999999986544322 22333344455566677  67999999995422111       11  1


Q ss_pred             cccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCcEEEEEeCCCCCCCCcCC
Q 043946           72 YYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE--NVNKLLVGNKCDLTDKKVVS  127 (198)
Q Consensus        72 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~iiv~nK~D~~~~~~~~  127 (198)
                      .....|+++||++++...--......+..+....+.  -.++++|+||+|........
T Consensus       109 ~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~  166 (257)
T d1h65a_         109 LDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLP  166 (257)
T ss_dssp             TTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCC
T ss_pred             hcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCc
Confidence            234578999999887532111112222333333332  25899999999987644444

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.59  E-value=2.1e-15  Score=113.49  Aligned_cols=115  Identities=18%  Similarity=0.253  Sum_probs=80.2

Q ss_pred             eeE-EEEEcCCCCcHHHHHHHHhc--CCC--------------CCCCcccceeeeEEEEEEE--------------CCeE
Q 043946            3 LFK-LLLIGDSGVGKSCLLLRFAD--DSY--------------LDSYISTIGVDFKIRTVEQ--------------DGKT   51 (198)
Q Consensus         3 ~~~-i~v~G~~~~GKStli~~l~~--~~~--------------~~~~~~~~~~~~~~~~~~~--------------~~~~   51 (198)
                      .+| |+|+|+.++|||||+.+|+.  +..              ..+.....+.......+.+              .+..
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            454 99999999999999999962  111              1111122222223333322              3345


Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLT  121 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~  121 (198)
                      +.+.++||||+..|.......++.+|++|+|+|+.++-.......|....    ..+.|+++++||+|..
T Consensus        96 ~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~----~~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          96 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL----GERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH----HTTCEEEEEEECHHHH
T ss_pred             eEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHH----HcCCCeEEEEECcccc
Confidence            78999999999999998999999999999999999876544444443333    2378999999999974

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.48  E-value=1.3e-14  Score=104.71  Aligned_cols=110  Identities=16%  Similarity=0.026  Sum_probs=64.9

Q ss_pred             EEEEEeCCCccccccccccc-----ccCccEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           53 KLQIWDTAGQERFRTITSSY-----YRGAHGIIIVYDVTD---QESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        53 ~~~i~D~~g~~~~~~~~~~~-----~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      .+.+.|+||+..........     ....+.+++++|+..   +...............  ....|.++++||+|+....
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~--~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCCHH
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHH--HhCCCceeeeeccccccHH
Confidence            47888999987553222111     234568999999864   3332222211111111  1267999999999987532


Q ss_pred             cCCH-----------------------HHHHH---HHHH--hCCcEEEEeccCCCCHHHHHHHHHHHH
Q 043946          125 VVSY-----------------------ETAKA---FADE--IGIPFMETSAKDSLNVEQAFMAMTADI  164 (198)
Q Consensus       125 ~~~~-----------------------~~~~~---~~~~--~~~~~~~~S~~~~~~i~~~~~~l~~~~  164 (198)
                      ....                       +....   ....  ..++++++||++|+|+++++..|.+.+
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         174 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            1100                       00000   0111  236899999999999999999988764

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.41  E-value=1.5e-12  Score=95.73  Aligned_cols=85  Identities=18%  Similarity=0.123  Sum_probs=54.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCcc---
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQE---   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~---   63 (198)
                      +.+||.++|.|+||||||+++|.+........|+.+.+...-.+.++..               ...+.++|.||.-   
T Consensus         1 m~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga   80 (278)
T d1jala1           1 MGFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCc
Confidence            3589999999999999999999976554344444443333333333221               1258899999932   


Q ss_pred             ----cccccccccccCccEEEEEEECC
Q 043946           64 ----RFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        64 ----~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                          ........-++++|+++.|+|+.
T Consensus        81 ~~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          81 SKGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             ccCCCccHHHHHHHHhccceEEEeecc
Confidence                22333445678999999999863

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.39  E-value=1.1e-12  Score=98.07  Aligned_cols=105  Identities=10%  Similarity=0.123  Sum_probs=63.5

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETA  131 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~  131 (198)
                      +.+.|++|.|....   .......+|.+++|..+...+....+..   .+.+     .+-++|+||+|+.+.........
T Consensus       144 ~d~iiiETVG~gq~---e~~~~~~~D~~v~v~~p~~GD~iQ~~k~---gilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQS---ETAVADLTDFFLVLMLPGAGDELQGIKK---GIFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSC---HHHHHTTSSEEEEEECSCC------CCT---THHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhh---hhhhhcccceEEEEeeccchhhhhhhhh---hHhh-----hhheeeEeccccccchHHHHHHH
Confidence            45677888775332   2224455999999999887655322211   1112     24489999999865433222222


Q ss_pred             HHHHHH----------hCCcEEEEeccCCCCHHHHHHHHHHHHHHh
Q 043946          132 KAFADE----------IGIPFMETSAKDSLNVEQAFMAMTADIKNR  167 (198)
Q Consensus       132 ~~~~~~----------~~~~~~~~S~~~~~~i~~~~~~l~~~~~~~  167 (198)
                      ..+...          +..+++.+|+++|.|+++++++|.+.....
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~  258 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKL  258 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            222222          335799999999999999999997766543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.37  E-value=7.2e-13  Score=99.20  Aligned_cols=101  Identities=14%  Similarity=0.066  Sum_probs=57.2

Q ss_pred             EEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHH
Q 043946           54 LQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETA  131 (198)
Q Consensus        54 ~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~  131 (198)
                      +.+++|.|....   ...+...+|.+++|.++...+...   .....+.+.     +-++|+||+|+.......  ..+.
T Consensus       149 ~iliEtvG~gq~---e~~i~~~aD~~l~v~~P~~Gd~iq---~~k~gi~e~-----aDi~VvNKaD~~~~~~~~~~~~~~  217 (327)
T d2p67a1         149 VVIVETVGVGQS---ETEVARMVDCFISLQIAGGGDDLQ---GIKKGLMEV-----ADLIVINKDDGDNHTNVAIARHMY  217 (327)
T ss_dssp             EEEEEEECCTTH---HHHHHTTCSEEEEEECC------C---CCCHHHHHH-----CSEEEECCCCTTCHHHHHHHHHHH
T ss_pred             eEEEeecccccc---chhhhhccceEEEEecCCCchhhh---hhchhhhcc-----ccEEEEEeecccchHHHHHHHHHH
Confidence            455555553211   123556689999999876554432   222223332     338899999986532211  1122


Q ss_pred             HHHHHH-------hCCcEEEEeccCCCCHHHHHHHHHHHHH
Q 043946          132 KAFADE-------IGIPFMETSAKDSLNVEQAFMAMTADIK  165 (198)
Q Consensus       132 ~~~~~~-------~~~~~~~~S~~~~~~i~~~~~~l~~~~~  165 (198)
                      ......       +..+++.+||.+|.|++++++.|.+...
T Consensus       218 ~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         218 ESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            222221       2247999999999999999999976554

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.35  E-value=5.8e-12  Score=93.37  Aligned_cols=86  Identities=20%  Similarity=0.176  Sum_probs=58.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEECCe---------------EEEEEEEeCCCcc--
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQDGK---------------TVKLQIWDTAGQE--   63 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~--   63 (198)
                      ..+||.++|.|+||||||+|+|++... .....|..+.+...-.+.++..               ...+.+.|.||..  
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            368999999999999999999997543 2233444444444444444321               1368899999833  


Q ss_pred             -----cccccccccccCccEEEEEEECCC
Q 043946           64 -----RFRTITSSYYRGAHGIIIVYDVTD   87 (198)
Q Consensus        64 -----~~~~~~~~~~~~~d~~i~v~d~~~   87 (198)
                           ........-++++|+++.|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                 122334556789999999998754

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.18  E-value=3.3e-11  Score=90.17  Aligned_cols=83  Identities=17%  Similarity=0.143  Sum_probs=45.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEE------EEEE----------------ECCeEEEEEEEeCCC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKI------RTVE----------------QDGKTVKLQIWDTAG   61 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~------~~~~----------------~~~~~~~~~i~D~~g   61 (198)
                      ++|+++|.||||||||+|+|.+.+......|..+.+...      ....                .......+.++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            689999999999999999999765443333433322211      1100                011235799999999


Q ss_pred             cc-------cccccccccccCccEEEEEEECC
Q 043946           62 QE-------RFRTITSSYYRGAHGIIIVYDVT   86 (198)
Q Consensus        62 ~~-------~~~~~~~~~~~~~d~~i~v~d~~   86 (198)
                      .-       .........++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            42       12333444568899999999986

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.15  E-value=1.8e-10  Score=85.19  Aligned_cols=118  Identities=18%  Similarity=0.253  Sum_probs=69.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcCCC-CCCCcccceeeeEEEEEEE----------CC----------------------
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADDSY-LDSYISTIGVDFKIRTVEQ----------DG----------------------   49 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~~~-~~~~~~~~~~~~~~~~~~~----------~~----------------------   49 (198)
                      ..+|+|+|..++|||||||+|++..+ +....+++..........-          .+                      
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhC
Confidence            35799999999999999999998775 3333332211111111000          00                      


Q ss_pred             -----------------eEEEEEEEeCCCcccc-------------cccccccccCcc-EEEEEEECCChhhHHHHHHHH
Q 043946           50 -----------------KTVKLQIWDTAGQERF-------------RTITSSYYRGAH-GIIIVYDVTDQESFNNVKQWL   98 (198)
Q Consensus        50 -----------------~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~   98 (198)
                                       ....+.++|+||....             ..+...|+...+ ++++|.++.....-.....+.
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~  185 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIA  185 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHH
T ss_pred             CCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHH
Confidence                             0013789999995321             233445666666 455566666544433334444


Q ss_pred             HHHHHhcCCCCcEEEEEeCCCCCCC
Q 043946           99 NEIDRYASENVNKLLVGNKCDLTDK  123 (198)
Q Consensus        99 ~~~~~~~~~~~p~iiv~nK~D~~~~  123 (198)
                      ..   ......++++|+||+|....
T Consensus       186 ~~---~~~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         186 KE---VDPQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HH---HCTTCSSEEEEEECGGGSCT
T ss_pred             HH---hCcCCCceeeEEeccccccc
Confidence            33   34445789999999998754

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=99.00  E-value=1.2e-09  Score=80.99  Aligned_cols=68  Identities=22%  Similarity=0.293  Sum_probs=40.9

Q ss_pred             EEEEEeCCCcccc-------------cccccccccCccEEEEEE-ECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 043946           53 KLQIWDTAGQERF-------------RTITSSYYRGAHGIIIVY-DVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKC  118 (198)
Q Consensus        53 ~~~i~D~~g~~~~-------------~~~~~~~~~~~d~~i~v~-d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~  118 (198)
                      .+.++|+||....             ..+...|+.+++.+|+++ +......-.....+   +........++++|+||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~---~~~~~~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQL---AKEVDPEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHH---HHHHCSSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHH---HHHhCcCCCeEEEEEecc
Confidence            3789999995321             234566788888766665 44332221122223   333344457899999999


Q ss_pred             CCCCC
Q 043946          119 DLTDK  123 (198)
Q Consensus       119 D~~~~  123 (198)
                      |....
T Consensus       209 D~~~~  213 (306)
T d1jwyb_         209 DLMDK  213 (306)
T ss_dssp             TSSCS
T ss_pred             ccccc
Confidence            98643

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.80  E-value=2.4e-09  Score=78.11  Aligned_cols=57  Identities=28%  Similarity=0.355  Sum_probs=36.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQ   62 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   62 (198)
                      ..++|+|+|.||||||||+|+|.+..... ..+..+.+.....+..+.   .+.++||||.
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~~~~-~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKNIAK-TGDRPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCC
T ss_pred             CceEEEEEecCccchhhhhhhhhccceEE-ECCcccccccceEEECCC---CeEEecCCCc
Confidence            46899999999999999999999865422 222333344444444443   4889999995

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.66  E-value=8.5e-09  Score=75.13  Aligned_cols=118  Identities=16%  Similarity=0.136  Sum_probs=80.7

Q ss_pred             ccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEEEecc
Q 043946           69 TSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFMETSAK  148 (198)
Q Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  148 (198)
                      ....+..+|++++|+|+.+|.+...  ..   +.+... ++|.++|+||+|+.+..  ..+...++....+...+.+|+.
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~---l~~~~~-~Kp~IlVlNK~DLv~~~--~~~~w~~~f~~~~~~~i~isa~   80 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PM---IEDILK-NKPRIMLLNKADKADAA--VTQQWKEHFENQGIRSLSINSV   80 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HH---HHHHCS-SSCEEEEEECGGGSCHH--HHHHHHHHHHTTTCCEEECCTT
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HH---HHHHHc-CCCeEEEEECccCCchH--HHHHHHHHHHhcCCccceeecc
Confidence            3446889999999999988754221  11   122222 67999999999996432  1233334445556789999999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhcC-cCCCCCCCCccccCCCCCCCCCC
Q 043946          149 DSLNVEQAFMAMTADIKNRMASQ-PAMNNARPPTVQIKGQPVNQKAS  194 (198)
Q Consensus       149 ~~~~i~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  194 (198)
                      ++.+..++...+.+.+.+..... ..........+-.-+.|++|||+
T Consensus        81 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~vvG~PNvGKSs  127 (273)
T d1puja_          81 NGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKST  127 (273)
T ss_dssp             TCTTGGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEESTTSSHHH
T ss_pred             cCCCccccchhhhhhhhhhhhhhhhccCCCCceEEEEEecCccchhh
Confidence            99999998888877776544332 22233455667888999999886

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.54  E-value=2.1e-08  Score=70.28  Aligned_cols=58  Identities=24%  Similarity=0.145  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCCCC------CCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSYLD------SYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF   65 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   65 (198)
                      ..+++|++|||||||+|+|.......      ....+-.++.....+.++++   ..++||||...+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~  160 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANL  160 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCccccc
Confidence            46899999999999999998643221      11222334444455566532   467899997654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.48  E-value=1.7e-07  Score=65.64  Aligned_cols=85  Identities=21%  Similarity=0.299  Sum_probs=59.6

Q ss_pred             ccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHh--CCcEEEEec
Q 043946           71 SYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEI--GIPFMETSA  147 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~S~  147 (198)
                      ....+.|.+++|+.+.+|+ +...+..++-....   .++|.+||+||+|+.+..  ..+....+...+  +.+++.+|+
T Consensus         6 P~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~--~~~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           6 PHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDED--DLRKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHH--HHHHHHHHHHHHTTTSCEEECCT
T ss_pred             CCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHH--HHHHHHHhhcccccceeEEEecc
Confidence            3457889999999988765 34445555544433   378999999999996532  123333333333  358899999


Q ss_pred             cCCCCHHHHHHHH
Q 043946          148 KDSLNVEQAFMAM  160 (198)
Q Consensus       148 ~~~~~i~~~~~~l  160 (198)
                      +++.|++++..+|
T Consensus        81 ~~~~g~~~L~~~l   93 (225)
T d1u0la2          81 KTGMGIEELKEYL   93 (225)
T ss_dssp             TTCTTHHHHHHHH
T ss_pred             ccchhHhhHHHHh
Confidence            9999999998876

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.44  E-value=3.1e-08  Score=69.69  Aligned_cols=58  Identities=22%  Similarity=0.277  Sum_probs=32.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcCCC------CCCCcccceeeeEEEEEEECCeEEEEEEEeCCCccccc
Q 043946            5 KLLLIGDSGVGKSCLLLRFADDSY------LDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERFR   66 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   66 (198)
                      ..+++|++|||||||+|+|.....      ......+-.++....-+..++.    .++||||...+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~gg----~iiDTPG~r~~~  162 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTSGG----LVADTPGFSSLE  162 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-------------------CCCCCEEEETTE----EEESSCSCSSCC
T ss_pred             eEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecCCC----EEEECCcccccc
Confidence            357999999999999999986422      1111122122222233445552    477999976654

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.42  E-value=1e-06  Score=59.34  Aligned_cols=22  Identities=32%  Similarity=0.807  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +||+|.|++|+|||||++.+.+
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            6899999999999999999875

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.32  E-value=8.2e-06  Score=57.09  Aligned_cols=71  Identities=14%  Similarity=0.247  Sum_probs=40.4

Q ss_pred             ccEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhC--CcEEEEeccCCCC
Q 043946           76 AHGIIIVYDVTDQESF-NNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIG--IPFMETSAKDSLN  152 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~S~~~~~~  152 (198)
                      .+++|.|+|+...... .....+..++   ...+   ++++||+|+...    .+.+++..+..+  +++++++ .-...
T Consensus       122 l~~vi~vVDa~~~~~~~~~~~~~~~Qi---~~AD---~ivlNK~Dl~~~----~~~~~~~l~~lNP~a~Ii~~~-~g~v~  190 (222)
T d1nija1         122 LDGVIALVDAVHADEQMNQFTIAQSQV---GYAD---RILLTKTDVAGE----AEKLHERLARINARAPVYTVT-HGDID  190 (222)
T ss_dssp             EEEEEEEEETTTHHHHHHHCHHHHHHH---HTCS---EEEEECTTTCSC----THHHHHHHHHHCSSSCEEECC-SSCCC
T ss_pred             ccchhhhhhhhhhhhhhhhhHHHHHHH---HhCC---cccccccccccH----HHHHHHHHHHHhCCCeEEEee-CCccC
Confidence            5788999999875432 1112222222   1122   688999998643    245566666665  5676544 33345


Q ss_pred             HHHHH
Q 043946          153 VEQAF  157 (198)
Q Consensus       153 i~~~~  157 (198)
                      ++.+|
T Consensus       191 ~~~ll  195 (222)
T d1nija1         191 LGLLF  195 (222)
T ss_dssp             GGGGS
T ss_pred             HHHhh
Confidence            55554

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.31  E-value=1.5e-07  Score=66.09  Aligned_cols=87  Identities=14%  Similarity=0.187  Sum_probs=60.7

Q ss_pred             ccccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCC--HHHHHHHHHHhCCcEEEEec
Q 043946           71 SYYRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVS--YETAKAFADEIGIPFMETSA  147 (198)
Q Consensus        71 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~S~  147 (198)
                      ....+.|.+++|+++.+|+ +...+..++-..   ...+++.+||+||+|+.+.....  .+...+.....+.+++.+|+
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a---~~~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLV---EANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHH---HTTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHH---HHcCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeec
Confidence            3456889999999998765 344555554433   33478999999999997543211  12233345566899999999


Q ss_pred             cCCCCHHHHHHHH
Q 043946          148 KDSLNVEQAFMAM  160 (198)
Q Consensus       148 ~~~~~i~~~~~~l  160 (198)
                      .++.|++++..+|
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999998887765

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.17  E-value=2.4e-07  Score=64.53  Aligned_cols=91  Identities=22%  Similarity=0.209  Sum_probs=53.6

Q ss_pred             EEEEEEeCCCccccccc----cccc---c-----cCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 043946           52 VKLQIWDTAGQERFRTI----TSSY---Y-----RGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKC  118 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~---~-----~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~  118 (198)
                      +.+.|+||+|....+..    ...+   .     ...+-.++|+|+.... .+..+...+..+       -+--++++|.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAV-------NVTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHS-------CCCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhcccc-------CCceEEEecc
Confidence            45899999994432211    1111   1     1246789999987643 233333333222       1345689999


Q ss_pred             CCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       119 D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |...    ..-.+.......++|+..++  +|+++++
T Consensus       167 De~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         167 DGTA----KGGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GGCS----CTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             cCCC----cccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9532    34566777788899987777  5666654

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.15  E-value=1.7e-07  Score=64.96  Aligned_cols=91  Identities=13%  Similarity=0.133  Sum_probs=54.1

Q ss_pred             EEEEEEeCCCccccccc----cccc--------ccCccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 043946           52 VKLQIWDTAGQERFRTI----TSSY--------YRGAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKC  118 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~--------~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~  118 (198)
                      +.+.++||+|.......    ...+        ....+-+++|+|+.... ....+..++..+      + +--++++|.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~-~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV------G-LTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH------C-CSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc------C-CceEEEecc
Confidence            45899999995433221    1111        12457789999988643 344444444433      2 225579999


Q ss_pred             CCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       119 D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |...    ..-.+.......+.|+..++.  |+++++
T Consensus       162 Det~----~~G~~l~~~~~~~~Pi~~i~~--Gq~p~D  192 (207)
T d1okkd2         162 DGTA----KGGVLIPIVRTLKVPIKFVGV--GEGPDD  192 (207)
T ss_dssp             TSSC----CCTTHHHHHHHHCCCEEEEEC--SSSTTC
T ss_pred             CCCC----CccHHHHHHHHHCCCEEEEeC--CCChHh
Confidence            9642    334556677788898877763  555443

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.11  E-value=5.1e-07  Score=62.64  Aligned_cols=91  Identities=19%  Similarity=0.242  Sum_probs=53.8

Q ss_pred             EEEEEEeCCCccccccc-------cccccc-----CccEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCcEEEEEeCC
Q 043946           52 VKLQIWDTAGQERFRTI-------TSSYYR-----GAHGIIIVYDVTDQE-SFNNVKQWLNEIDRYASENVNKLLVGNKC  118 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~-------~~~~~~-----~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~iiv~nK~  118 (198)
                      +.+.++||+|....+..       +....+     ..+-+++|.|+.... ....+..++..+      + +--++++|.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~-~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV------G-LTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS------C-CCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc------C-CceEEEeec
Confidence            35789999994332111       111122     246889999987643 333333333222      1 335678999


Q ss_pred             CCCCCCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          119 DLTDKKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       119 D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                      |...    ..-.+.......++|+..++  .|+++++
T Consensus       165 De~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTA----KGGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCT----TTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCC----CccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9632    34566677788899987777  6666644

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.05  E-value=2.1e-06  Score=59.52  Aligned_cols=91  Identities=13%  Similarity=0.145  Sum_probs=54.7

Q ss_pred             EEEEEEeCCCcccccc------ccccc--ccCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 043946           52 VKLQIWDTAGQERFRT------ITSSY--YRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTD  122 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~------~~~~~--~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  122 (198)
                      ..+.++||+|...+..      ....+  .-..+-+++|+|+..... ...+...+.   . .  + +--++++|.|.. 
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~---~-~--~-~~~lI~TKlDet-  166 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQ---A-S--K-IGTIIITKMDGT-  166 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHH---H-C--T-TEEEEEECTTSC-
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhc---c-c--C-cceEEEecccCC-
Confidence            4689999999543321      11111  123467889999876432 222222222   1 1  2 334679999963 


Q ss_pred             CCcCCHHHHHHHHHHhCCcEEEEeccCCCCHHH
Q 043946          123 KKVVSYETAKAFADEIGIPFMETSAKDSLNVEQ  155 (198)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~  155 (198)
                         ...-.+.......++|+..++  +|+++++
T Consensus       167 ---~~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         167 ---AKGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ---SCHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ---CcccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence               246777788888899987777  4766654

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.89  E-value=2.9e-06  Score=57.16  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      =+|+|.|++|||||||+++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.87  E-value=4.2e-05  Score=52.70  Aligned_cols=84  Identities=18%  Similarity=0.178  Sum_probs=50.2

Q ss_pred             EEEEEEeCCCccccccc----cccc--ccCccEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCC
Q 043946           52 VKLQIWDTAGQERFRTI----TSSY--YRGAHGIIIVYDVTDQES-FNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKK  124 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~  124 (198)
                      ..+.++||+|.......    +..+  ....+-+++|.|+...+. ...+..+++.+    +   .--++++|.|...  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~----~---~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV----G---VTGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT----C---CCEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC----C---CCeeEEeecCccc--
Confidence            45889999995433221    1111  234678899999876543 22222222222    1   2246789999532  


Q ss_pred             cCCHHHHHHHHHHhCCcEEEEe
Q 043946          125 VVSYETAKAFADEIGIPFMETS  146 (198)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~S  146 (198)
                        ..-.+.......+.|+..++
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC
T ss_pred             --cchHHHHHHHHHCCCEEEEe
Confidence              34666777888898876665

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.84  E-value=3.7e-06  Score=55.97  Aligned_cols=23  Identities=43%  Similarity=0.606  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|+|+|||||||+.++|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.77  E-value=6.6e-06  Score=55.43  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +||+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988864

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.75  E-value=7.3e-06  Score=54.36  Aligned_cols=22  Identities=32%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|+|++|||||||+++|+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3589999999999999999984

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.74  E-value=6.6e-06  Score=55.95  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=21.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++|+|+|++||||||+++.|..
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999998863

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.72  E-value=9e-06  Score=54.84  Aligned_cols=22  Identities=32%  Similarity=0.733  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +||+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999874

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.71  E-value=9.2e-06  Score=54.87  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|+|+|+|||||||+++.|..
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998874

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.71  E-value=1e-05  Score=53.84  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..++|+|.|++||||||+.+.|..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            357999999999999999999864

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.71  E-value=1e-05  Score=55.12  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=21.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.+||+|+|+|||||||+.+.|..
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999999875

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.67  E-value=1.2e-05  Score=54.18  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +||+|+|+|||||||..+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988863

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.65  E-value=1.1e-05  Score=53.59  Aligned_cols=21  Identities=19%  Similarity=0.450  Sum_probs=18.4

Q ss_pred             EE-EEEcCCCCcHHHHHHHHhc
Q 043946            5 KL-LLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i-~v~G~~~~GKStli~~l~~   25 (198)
                      || .|+|.+|||||||+++|+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            45 5999999999999999974

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.65  E-value=1.4e-05  Score=53.92  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+||+|+|+|||||||+.+.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            58999999999999999999864

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.65  E-value=1.3e-05  Score=52.20  Aligned_cols=20  Identities=40%  Similarity=0.544  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |++.|+||||||||+++|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999999875

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.62  E-value=1.8e-05  Score=53.77  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..+||+++|+|||||||+.+.|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998874

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.56  E-value=8.9e-06  Score=54.91  Aligned_cols=20  Identities=30%  Similarity=0.587  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|+||+|+||+||+++|..
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999984

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.55  E-value=2.1e-05  Score=52.08  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|++.|++||||||++++|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999999974

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.53  E-value=2.8e-05  Score=52.89  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++.|+|+|+|||||||..+.|..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999988864

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.50  E-value=3.1e-05  Score=52.69  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +..|+|+|+|||||||++++|..
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999864

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.45  E-value=3.1e-05  Score=50.68  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.45  E-value=3.4e-05  Score=51.66  Aligned_cols=22  Identities=23%  Similarity=0.304  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+++|.|||||||++++|..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999864

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.39  E-value=3.9e-05  Score=50.84  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .||+++|++||||||+.+.|..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988863

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.33  E-value=6.8e-05  Score=51.36  Aligned_cols=23  Identities=13%  Similarity=0.288  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.-|+++|.|||||||+.++|..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999999974

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.31  E-value=0.00013  Score=52.45  Aligned_cols=61  Identities=23%  Similarity=0.092  Sum_probs=36.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcCCCCCCCccc-ceeeeEEEEEE---ECCeEEEEEEEeCCCccc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADDSYLDSYIST-IGVDFKIRTVE---QDGKTVKLQIWDTAGQER   64 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~~~~~~~~~~-~~~~~~~~~~~---~~~~~~~~~i~D~~g~~~   64 (198)
                      .-|.|+|+.++|||+|+|.|.+....-....+ ...+.....+.   ..+....+.++||.|...
T Consensus        33 ~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          33 VVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             EEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             EEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccc
Confidence            45889999999999999999975431111111 11122222211   123345788999999654

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.31  E-value=6.3e-05  Score=50.88  Aligned_cols=20  Identities=40%  Similarity=0.664  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|+|++|||||||+++|..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999975

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.30  E-value=6.8e-05  Score=50.36  Aligned_cols=21  Identities=38%  Similarity=0.574  Sum_probs=17.6

Q ss_pred             eEEE-EEcCCCCcHHHHHHHHh
Q 043946            4 FKLL-LIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         4 ~~i~-v~G~~~~GKStli~~l~   24 (198)
                      +||+ |.|.+||||||+++.|.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4665 56999999999998885

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.29  E-value=6.3e-05  Score=49.63  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +|+++|++||||||+.+.|..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988853

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.29  E-value=6.8e-05  Score=50.15  Aligned_cols=19  Identities=21%  Similarity=0.275  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      |+|.|++||||||+++.|.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6888999999999999885

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.29  E-value=6.8e-05  Score=49.57  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++++|++||||||+.+.|..
T Consensus         9 ivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67799999999999999864

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.28  E-value=7.6e-05  Score=49.47  Aligned_cols=21  Identities=43%  Similarity=0.564  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |++.|++||||||+.+.|...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999988753

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=7.7e-05  Score=49.72  Aligned_cols=21  Identities=33%  Similarity=0.699  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|.|++|+|||||++.+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999999863

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.26  E-value=7.7e-05  Score=50.16  Aligned_cols=20  Identities=35%  Similarity=0.544  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+++||+|||||||++.|..
T Consensus         5 ivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67999999999999999974

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.24  E-value=9.9e-05  Score=48.99  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +-|.+.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999988863

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.22  E-value=9e-05  Score=52.20  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      +++|+|++|||||||++.+.+-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999988763

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.21  E-value=9e-05  Score=50.35  Aligned_cols=23  Identities=17%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-.|+|+|+|||||||+.+.|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999999864

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.19  E-value=0.0001  Score=50.02  Aligned_cols=20  Identities=45%  Similarity=0.689  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|+||+|||||||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999864

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.18  E-value=0.0001  Score=50.06  Aligned_cols=21  Identities=19%  Similarity=0.458  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|+|+|||||||+.++|..
T Consensus        10 iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999864

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.17  E-value=0.00011  Score=48.64  Aligned_cols=20  Identities=30%  Similarity=0.479  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |++.|++||||||+.+.|..
T Consensus         6 I~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45559999999999999875

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.15  E-value=0.00011  Score=50.25  Aligned_cols=21  Identities=29%  Similarity=0.491  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCChHHHHHHHHhcc
Confidence            689999999999999999863

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.14  E-value=0.00012  Score=50.34  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|+||+|||||||+++|...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999999753

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.14  E-value=0.00012  Score=48.53  Aligned_cols=21  Identities=19%  Similarity=0.456  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++|++||||||+.+.|..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999988853

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.13  E-value=0.00013  Score=51.82  Aligned_cols=21  Identities=33%  Similarity=0.509  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++-+.+
T Consensus        43 ~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            589999999999999988875

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.13  E-value=0.00013  Score=51.38  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++-+.+
T Consensus        30 ~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.12  E-value=0.00013  Score=50.97  Aligned_cols=21  Identities=43%  Similarity=0.612  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHhcC
Confidence            689999999999999988763

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.09  E-value=0.00014  Score=50.83  Aligned_cols=21  Identities=33%  Similarity=0.412  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCcchhhHhccCC
Confidence            689999999999999977763

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.08  E-value=0.00017  Score=48.57  Aligned_cols=23  Identities=26%  Similarity=0.228  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++=|+|-|++|||||||.++|..
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999863

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=0.00016  Score=51.23  Aligned_cols=21  Identities=29%  Similarity=0.445  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|++|||||||++-+.+
T Consensus        42 ~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            579999999999999998876

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.06  E-value=0.00016  Score=51.35  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      --|++.|+||+|||||++.+...
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            34899999999999999998753

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.05  E-value=0.00017  Score=50.56  Aligned_cols=21  Identities=38%  Similarity=0.539  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHHcC
Confidence            578999999999999998874

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.05  E-value=0.00017  Score=50.58  Aligned_cols=21  Identities=43%  Similarity=0.578  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHHcC
Confidence            689999999999999988864

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.04  E-value=0.00017  Score=51.91  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4789999999999999998863

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.00  E-value=0.00011  Score=49.63  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..|.+.|.+||||||+.+.|..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4578899999999999999863

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.99  E-value=0.00014  Score=50.71  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      ++++|++|||||||++.+.+-.
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            6899999999999999998743

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.99  E-value=0.00021  Score=49.32  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|-|++||||||..+.|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999998864

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.96  E-value=0.0002  Score=50.15  Aligned_cols=22  Identities=41%  Similarity=0.575  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      -.+++.||||+||||+++.+..
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998875

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.95  E-value=0.00023  Score=49.95  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .+.++|++|||||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            3689999999999999988864

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.94  E-value=0.00021  Score=49.95  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.||||+||||+++.+..
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHh
Confidence            589999999999999998875

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00027  Score=47.85  Aligned_cols=21  Identities=38%  Similarity=0.729  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++++|+||||||++++.|..
T Consensus        45 n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHH
Confidence            689999999999999988874

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00022  Score=50.04  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|++|||||||++.+.+-
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            689999999999999988764

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.92  E-value=0.00029  Score=48.35  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      ++-|+|-|++|||||||.+.|.
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~   23 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIV   23 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            5779999999999999999885

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.91  E-value=0.00024  Score=49.95  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            689999999999999999874

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.89  E-value=0.00017  Score=50.44  Aligned_cols=20  Identities=55%  Similarity=0.830  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++++|+.|||||||++.+.+
T Consensus        28 ~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            68999999999999999987

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.88  E-value=0.00036  Score=51.28  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhcC
Q 043946            4 FKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -+|+|.|++|+|||||+++|+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            36899999999999999999863

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.86  E-value=0.00034  Score=49.09  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      +.++|+.|+|||||++.+.+-.
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5799999999999999998753

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.86  E-value=0.00033  Score=50.01  Aligned_cols=21  Identities=43%  Similarity=0.634  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++++|++|||||++++.|..
T Consensus        41 n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEECCCCCcHHHHHHHHHH
Confidence            689999999999999999874

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.85  E-value=0.00018  Score=51.07  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++|+|++|||||||++-+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            589999999999999986665

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.81  E-value=0.00031  Score=51.30  Aligned_cols=21  Identities=43%  Similarity=0.779  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+++||||+|||.|++++..
T Consensus        51 ~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          51 NILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhh
Confidence            489999999999999999875

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.79  E-value=0.00033  Score=49.43  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|++.|+||+|||++++++..
T Consensus        42 ~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhh
Confidence            489999999999999999975

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.77  E-value=0.00047  Score=46.41  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++-|+|.|.+||||||+++.|..
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998864

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.76  E-value=0.00019  Score=50.36  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4789999999999999998874

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.76  E-value=0.00038  Score=49.42  Aligned_cols=22  Identities=36%  Similarity=0.395  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|+|++|||||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            3689999999999999998863

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.74  E-value=0.00039  Score=49.28  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++++|+.|||||||++.+.+-
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHHCC
Confidence            689999999999999999874

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.67  E-value=0.00046  Score=46.62  Aligned_cols=24  Identities=33%  Similarity=0.577  Sum_probs=20.9

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHhc
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++-|+|-|..||||||+++.|..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999998874

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.65  E-value=0.0009  Score=43.65  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|++-|+-|||||||++.++.
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~   55 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCccHHHHHHHHHh
Confidence            478899999999999999974

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.65  E-value=0.00052  Score=47.63  Aligned_cols=21  Identities=43%  Similarity=0.667  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            589999999999999998875

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.65  E-value=0.00053  Score=47.08  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|.|+|||||+|+.+.|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478889999999999988864

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.62  E-value=0.0005  Score=48.29  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        54 ~lll~GPpG~GKTt~a~~la~   74 (253)
T d1sxja2          54 AAMLYGPPGIGKTTAAHLVAQ   74 (253)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999885

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.58  E-value=0.023  Score=39.89  Aligned_cols=87  Identities=21%  Similarity=0.277  Sum_probs=51.6

Q ss_pred             EEEEEEeCCCcccccc-cccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCC-CCcE-EEEEeCCCCCCCCcCCH
Q 043946           52 VKLQIWDTAGQERFRT-ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASE-NVNK-LLVGNKCDLTDKKVVSY  128 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~-iiv~nK~D~~~~~~~~~  128 (198)
                      +.+.++|+|+.-.... ........+|.++++.+. +..++..+......+...... +.++ -+++|+.+...    ..
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----~~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN----EY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----CH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC----cc
Confidence            4478889986432211 122233457888887766 456666666666666554432 2332 36789987643    34


Q ss_pred             HHHHHHHHHhCCcEE
Q 043946          129 ETAKAFADEIGIPFM  143 (198)
Q Consensus       129 ~~~~~~~~~~~~~~~  143 (198)
                      +..+.+.+..+.+++
T Consensus       191 ~~~~~~~~~~~~~~~  205 (269)
T d1cp2a_         191 ELLDAFAKELGSQLI  205 (269)
T ss_dssp             HHHHHHHHHHTCCEE
T ss_pred             chhhhhHhhcCCeEE
Confidence            566777778887654

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.55  E-value=0.00062  Score=48.13  Aligned_cols=21  Identities=24%  Similarity=0.256  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|.|++|+|||||++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            367899999999999999864

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.54  E-value=0.00063  Score=47.96  Aligned_cols=21  Identities=43%  Similarity=0.646  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|++.|+||+|||+|++.+..
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            489999999999999999985

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.51  E-value=0.00071  Score=47.73  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|++|+|||++++.+..
T Consensus        45 ~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          45 RATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998874

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.45  E-value=0.00085  Score=45.60  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +-|+|-|..||||||+++.|..
T Consensus         1 mlI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           1 MLIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3489999999999999988863

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.41  E-value=0.00093  Score=45.80  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ..-|.+.|.||||||||.+.|..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999864

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.39  E-value=0.00088  Score=47.49  Aligned_cols=22  Identities=32%  Similarity=0.575  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .|++.|+||+|||++++++...
T Consensus        40 giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHHH
Confidence            5899999999999999998863

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.38  E-value=0.00082  Score=51.44  Aligned_cols=21  Identities=43%  Similarity=0.779  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +|+++||+|||||-|+++|..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999964

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.36  E-value=0.00099  Score=45.96  Aligned_cols=21  Identities=24%  Similarity=0.510  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHH
Confidence            578999999999999988764

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.36  E-value=0.001  Score=47.15  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|+||+|||++++.+..
T Consensus        47 ~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHH
Confidence            389999999999999999975

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.33  E-value=0.0012  Score=47.96  Aligned_cols=22  Identities=23%  Similarity=0.304  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHh
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~   24 (198)
                      ++-|+|.|++|||||||.+.|.
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCCcHHHHHHH
Confidence            5789999999999999988875

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.31  E-value=0.0011  Score=45.96  Aligned_cols=21  Identities=29%  Similarity=0.651  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHH
Confidence            478999999999999998874

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.26  E-value=0.00097  Score=46.69  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988864

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.23  E-value=0.00066  Score=48.20  Aligned_cols=19  Identities=32%  Similarity=0.338  Sum_probs=16.4

Q ss_pred             EEEcCCCCcHHHHHHHHhc
Q 043946            7 LLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~~   25 (198)
                      ++.|+||+|||++++.+..
T Consensus        50 ~l~GppGtGKT~l~~~l~~   68 (287)
T d1w5sa2          50 GSIGRVGIGKTTLAKFTVK   68 (287)
T ss_dssp             ECTTCCSSSHHHHHHHHHH
T ss_pred             EeECCCCCCHHHHHHHHHH
Confidence            4569999999999999874

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.23  E-value=0.0012  Score=45.56  Aligned_cols=21  Identities=33%  Similarity=0.651  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++|+||||+++.+..
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            478999999999999999875

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.11  E-value=0.0016  Score=44.36  Aligned_cols=20  Identities=20%  Similarity=0.327  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999988763

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.09  E-value=0.0013  Score=46.82  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|++|+|||+|++++...
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcchhHHHHHHHH
Confidence            5899999999999999999863

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.08  E-value=0.0012  Score=49.67  Aligned_cols=21  Identities=38%  Similarity=0.729  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++++|+||||||++++.|..
T Consensus        45 n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHHH
Confidence            578999999999999977653

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.88  E-value=0.0024  Score=43.68  Aligned_cols=20  Identities=25%  Similarity=0.373  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998887753

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.86  E-value=0.0027  Score=42.11  Aligned_cols=22  Identities=45%  Similarity=0.667  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|++|+||||+.-.|..+
T Consensus        16 gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            4799999999999999998864

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.80  E-value=0.0033  Score=42.68  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ++-|+|.|..||||||+.+.|..
T Consensus         2 ~~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           2 TYIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            56789999999999999988753

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.80  E-value=0.003  Score=41.88  Aligned_cols=22  Identities=41%  Similarity=0.610  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|++|+||||+.-.|..+
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4799999999999999998863

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0028  Score=42.90  Aligned_cols=22  Identities=18%  Similarity=0.228  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      +.|.|++|+|||+|+..|+.+.
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            5899999999999999887543

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.77  E-value=0.0038  Score=44.73  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=18.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHH
Q 043946            2 YLFKLLLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         2 ~~~~i~v~G~~~~GKStli~~l   23 (198)
                      .++=|.|-|.+|||||||...|
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHH
Confidence            3567899999999999998766

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.74  E-value=0.0019  Score=44.81  Aligned_cols=21  Identities=24%  Similarity=0.382  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .|+|-|..||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.72  E-value=0.0027  Score=47.27  Aligned_cols=21  Identities=38%  Similarity=0.684  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      +++++||+|||||-|.++|..
T Consensus        70 niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeeeCCCCccHHHHHHHHHh
Confidence            489999999999999999864

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.69  E-value=0.0028  Score=47.12  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -+++.||||+|||+|++.+..
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            479999999999999999874

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.68  E-value=0.0041  Score=42.35  Aligned_cols=23  Identities=39%  Similarity=0.550  Sum_probs=19.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+-|+|.|..||||||+.+.|..
T Consensus         3 k~iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           3 RYIVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            34578999999999999998854

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.67  E-value=0.0016  Score=47.74  Aligned_cols=20  Identities=40%  Similarity=0.649  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      .+++.|+||+|||+|++++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            48999999999999999985

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.58  E-value=0.0036  Score=43.20  Aligned_cols=22  Identities=32%  Similarity=0.274  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      ++|.|+||+|||+|+..+....
T Consensus        37 ~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999887543

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=95.54  E-value=0.0048  Score=45.20  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|=|.-|+||||+++.|..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHS
T ss_pred             eEEEEEECCccCCHHHHHHHHHH
Confidence            68999999999999999998875

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.004  Score=43.16  Aligned_cols=21  Identities=29%  Similarity=0.472  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            588999999999999999874

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=95.47  E-value=0.0037  Score=45.78  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=21.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhcC
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~~   26 (198)
                      .++|.|=|.-||||||+++.|...
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999753

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.44  E-value=0.004  Score=44.42  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|.|.|+.|+|||||++++..
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999875

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.44  E-value=0.0019  Score=46.36  Aligned_cols=20  Identities=30%  Similarity=0.476  Sum_probs=14.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      =|+|.|.+||||||+.++|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            48999999999999998873

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.43  E-value=0.0042  Score=45.18  Aligned_cols=21  Identities=29%  Similarity=0.642  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++++||+|+|||.|.+.|..
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            578999999999999999863

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.41  E-value=0.0043  Score=43.08  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcCC
Q 043946            6 LLLIGDSGVGKSCLLLRFADDS   27 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~~   27 (198)
                      ++|.|+||+|||+|.-.++...
T Consensus        39 ~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          39 TEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999998887543

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.41  E-value=0.0048  Score=40.59  Aligned_cols=22  Identities=41%  Similarity=0.643  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      -|++.|++|+||||+.-.|..+
T Consensus        17 gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            4899999999999999888754

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.35  E-value=0.00081  Score=45.22  Aligned_cols=18  Identities=39%  Similarity=0.621  Sum_probs=16.0

Q ss_pred             EEEcCCCCcHHHHHHHHh
Q 043946            7 LLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~   24 (198)
                      +|+|+.|+||||+++++.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            467999999999999984

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.21  E-value=0.0057  Score=42.30  Aligned_cols=21  Identities=38%  Similarity=0.787  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|.|+||+|||+|+.+++..
T Consensus        29 ~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          29 ILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            689999999999999888754

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=95.18  E-value=0.0054  Score=44.80  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|.|=|.-||||||+++.|..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            57899999999999999998874

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.15  E-value=0.0059  Score=41.76  Aligned_cols=20  Identities=20%  Similarity=0.195  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      |+|-|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999988863

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.14  E-value=0.0037  Score=44.94  Aligned_cols=17  Identities=29%  Similarity=0.575  Sum_probs=16.0

Q ss_pred             EEEcCCCCcHHHHHHHH
Q 043946            7 LLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l   23 (198)
                      +++|+.||||||+++++
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            78999999999999987

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=95.10  E-value=0.0064  Score=44.24  Aligned_cols=20  Identities=20%  Similarity=0.491  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +++.|+||+|||.|.+.|..
T Consensus       126 ~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            34579999999999999975

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.97  E-value=0.0077  Score=40.91  Aligned_cols=20  Identities=25%  Similarity=0.519  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +++.|++|+||||+++.+..
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            79999999999999997754

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.90  E-value=0.0079  Score=41.67  Aligned_cols=21  Identities=19%  Similarity=0.153  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|.|++|+|||+|...++..
T Consensus        40 ~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          40 TEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999988753

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.82  E-value=0.0083  Score=41.32  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      ++|.|++|+|||+|...++..
T Consensus        37 ~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            689999999999999988753

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.74  E-value=0.0092  Score=41.39  Aligned_cols=19  Identities=37%  Similarity=0.590  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      +++.|++|+||||+++.+.
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            7889999999999998875

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=94.62  E-value=0.0089  Score=44.93  Aligned_cols=21  Identities=33%  Similarity=0.506  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|.|+.|+||||.+..++..
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            799999999999999999863

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.52  E-value=0.0079  Score=40.56  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .+++.|++++|||.|+..|..
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            478999999999999998864

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=94.43  E-value=0.012  Score=41.60  Aligned_cols=20  Identities=30%  Similarity=0.469  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      ++|.|+||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            57999999999999888763

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.35  E-value=0.013  Score=40.06  Aligned_cols=19  Identities=37%  Similarity=0.665  Sum_probs=16.6

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      ++|.|++|+|||+|...++
T Consensus        29 ~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          29 TLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            5789999999999987765

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.33  E-value=0.01  Score=44.31  Aligned_cols=18  Identities=33%  Similarity=0.564  Sum_probs=16.3

Q ss_pred             EEEcCCCCcHHHHHHHHh
Q 043946            7 LLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         7 ~v~G~~~~GKStli~~l~   24 (198)
                      +|+|+.|+|||+++.++.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            688999999999999973

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.30  E-value=0.013  Score=40.04  Aligned_cols=21  Identities=29%  Similarity=0.612  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      +.+.|++|+|||-|++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            689999999999999998753

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.73  E-value=0.02  Score=39.52  Aligned_cols=21  Identities=19%  Similarity=0.123  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -|+|.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999998864

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=93.72  E-value=0.018  Score=43.28  Aligned_cols=21  Identities=48%  Similarity=0.664  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      .++|+|.+|+|||++++.++.
T Consensus        52 H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHH
Confidence            379999999999999987764

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=93.59  E-value=0.021  Score=40.11  Aligned_cols=19  Identities=42%  Similarity=0.564  Sum_probs=16.7

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|.|++|+|||+|+-.+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            5799999999999987765

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=93.46  E-value=0.019  Score=41.65  Aligned_cols=20  Identities=40%  Similarity=0.692  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 043946            5 KLLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~   24 (198)
                      .++++|++|+|||.+.+.|.
T Consensus        55 ~~lf~Gp~G~GKt~lak~la   74 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLA   74 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHH
Confidence            46788999999999998875

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.24  E-value=0.02  Score=41.13  Aligned_cols=15  Identities=40%  Similarity=0.789  Sum_probs=13.1

Q ss_pred             EEEEcCCCCcHHHHH
Q 043946            6 LLLIGDSGVGKSCLL   20 (198)
Q Consensus         6 i~v~G~~~~GKStli   20 (198)
                      ++|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            689999999999764

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.15  E-value=0.017  Score=41.14  Aligned_cols=17  Identities=24%  Similarity=0.466  Sum_probs=13.8

Q ss_pred             EEEEcCCCCcHHHH-HHH
Q 043946            6 LLLIGDSGVGKSCL-LLR   22 (198)
Q Consensus         6 i~v~G~~~~GKStl-i~~   22 (198)
                      ++|+|.+|+||||. +++
T Consensus        17 ~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             EEECCCTTSCHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHH
Confidence            57899999999975 444

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.09  E-value=0.032  Score=39.77  Aligned_cols=21  Identities=29%  Similarity=0.458  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      |++|+|++|+|||+|+..+..
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~   65 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQ   65 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHH
Confidence            789999999999999988864

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.73  E-value=0.39  Score=32.20  Aligned_cols=75  Identities=12%  Similarity=0.096  Sum_probs=48.2

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCCcCCHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKL-LVGNKCDLTDKKVVSYET  130 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-iv~nK~D~~~~~~~~~~~  130 (198)
                      +.+.++|+++.-.  ......+..+|.++++...+ ..++..+......+.+.   +.|++ +|+|+.+..+. ....+.
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~~-~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSDR-DIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCTT-CCCHHH
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhhh---hhhhhhhhhcccccccc-hhhhHH
Confidence            4578899987543  23444567899999999875 45566666655555443   56765 78899986543 334444


Q ss_pred             HHH
Q 043946          131 AKA  133 (198)
Q Consensus       131 ~~~  133 (198)
                      .++
T Consensus       185 ~~~  187 (237)
T d1g3qa_         185 AED  187 (237)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            433

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=92.30  E-value=0.041  Score=38.81  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      -+.+.|+++.|||+|++.+..
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            468899999999999998864

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=91.32  E-value=0.062  Score=39.53  Aligned_cols=18  Identities=22%  Similarity=0.541  Sum_probs=15.1

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 043946            6 LLLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l   23 (198)
                      .+|.|++|+|||+++.++
T Consensus       166 ~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         166 SVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEECCTTSTHHHHHHHH
T ss_pred             EEEEcCCCCCceehHHHH
Confidence            578999999999987553

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.93  E-value=0.088  Score=32.17  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      +.|.+-|.+|+|||++.++|..
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Confidence            5688999999999999999964

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=90.64  E-value=0.082  Score=37.08  Aligned_cols=20  Identities=25%  Similarity=0.411  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +.|.|++++|||+|+-.+..
T Consensus        57 tei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            57899999999999877764

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.60  E-value=0.079  Score=36.75  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHhc
Q 043946            4 FKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         4 ~~i~v~G~~~~GKStli~~l~~   25 (198)
                      .-|+|.|++|+||+.+.+.+-.
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHHH
Confidence            3479999999999999987753

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.49  E-value=0.096  Score=36.95  Aligned_cols=22  Identities=36%  Similarity=0.777  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      |++++|.+|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            7899999999999998888753

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=90.48  E-value=0.074  Score=35.04  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhcC
Q 043946            6 LLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~~   26 (198)
                      |+|.|...||||.+..+|...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999999754

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=87.91  E-value=0.86  Score=28.71  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=18.7

Q ss_pred             ceeEEEEEcC-CCCcHHHHHHHHhcCCC
Q 043946            2 YLFKLLLIGD-SGVGKSCLLLRFADDSY   28 (198)
Q Consensus         2 ~~~~i~v~G~-~~~GKStli~~l~~~~~   28 (198)
                      .++||.|+|. .++|-+. +..|..+..
T Consensus         3 ~p~KV~IiGA~G~VG~~~-a~~l~~~~l   29 (154)
T d1y7ta1           3 APVRVAVTGAAGQIGYSL-LFRIAAGEM   29 (154)
T ss_dssp             CCEEEEESSTTSHHHHHH-HHHHHTTTT
T ss_pred             CCCEEEEECCCCHHHHHH-HHHHHhccc
Confidence            4789999996 7899655 556665443

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=87.45  E-value=0.12  Score=36.96  Aligned_cols=14  Identities=43%  Similarity=0.688  Sum_probs=12.9

Q ss_pred             EEEcCCCCcHHHHH
Q 043946            7 LLIGDSGVGKSCLL   20 (198)
Q Consensus         7 ~v~G~~~~GKStli   20 (198)
                      +++|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            79999999999975

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.37  E-value=0.21  Score=33.21  Aligned_cols=23  Identities=13%  Similarity=0.135  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHhc
Q 043946            3 LFKLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         3 ~~~i~v~G~~~~GKStli~~l~~   25 (198)
                      ...+++-|++|+|||+++..+..
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999988864

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=87.35  E-value=0.21  Score=35.14  Aligned_cols=88  Identities=19%  Similarity=0.206  Sum_probs=46.9

Q ss_pred             EEEEEEeCCCcccccccc-cccccCccEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCcE-EEEEeCCCCCCCCcCCH
Q 043946           52 VKLQIWDTAGQERFRTIT-SSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYA-SENVNK-LLVGNKCDLTDKKVVSY  128 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~-iiv~nK~D~~~~~~~~~  128 (198)
                      +.+.++|+|+.-...... ......+|.++++...+ ..++..+......+.... ..+.++ .+|.|+.+...    ..
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~~-~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~----~~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGE-MMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----ED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSS-HHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----HH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccchh-HHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh----hH
Confidence            446788887643222111 11224567777665443 455555555555444332 233444 36789877432    23


Q ss_pred             HHHHHHHHHhCCcEEE
Q 043946          129 ETAKAFADEIGIPFME  144 (198)
Q Consensus       129 ~~~~~~~~~~~~~~~~  144 (198)
                      +..+.+.+.++.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            4466677777876553

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=87.30  E-value=0.15  Score=31.49  Aligned_cols=19  Identities=26%  Similarity=0.167  Sum_probs=15.5

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      .+|.++.|+|||.++-.+.
T Consensus        11 ~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          11 AHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEECCTTSCTTTHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            4779999999999875554

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.11  E-value=0.2  Score=34.31  Aligned_cols=19  Identities=32%  Similarity=0.401  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      ++|-|+..+||||+++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5788999999999999874

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=87.09  E-value=0.2  Score=34.10  Aligned_cols=19  Identities=37%  Similarity=0.499  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 043946            6 LLLIGDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~   24 (198)
                      ++|-|+..+||||+++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6899999999999999864

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.03  E-value=0.15  Score=36.10  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhc
Q 043946            5 KLLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~   25 (198)
                      |++++|.+|+|||+|+..+..
T Consensus        70 r~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHH
Confidence            689999999999999877764

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=86.91  E-value=0.14  Score=36.84  Aligned_cols=15  Identities=40%  Similarity=0.616  Sum_probs=13.2

Q ss_pred             EEEEcCCCCcHHHHH
Q 043946            6 LLLIGDSGVGKSCLL   20 (198)
Q Consensus         6 i~v~G~~~~GKStli   20 (198)
                      -+++|.+|.|||||-
T Consensus        17 alffGLSGTGKTTLs   31 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLS   31 (318)
T ss_dssp             EEEEECTTSCHHHHT
T ss_pred             EEEEccCCCCccccc
Confidence            489999999999964

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=86.58  E-value=0.22  Score=34.88  Aligned_cols=39  Identities=15%  Similarity=0.200  Sum_probs=25.0

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcE-EEEEeCCC
Q 043946           77 HGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNK-LLVGNKCD  119 (198)
Q Consensus        77 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-iiv~nK~D  119 (198)
                      +.+++|..++ +.++......+..+...   ++|+ -+|+|+.-
T Consensus       199 t~~~lVt~pe-~~~~~~~~r~~~~l~~~---gi~~~~vVvN~v~  238 (296)
T d1ihua1         199 TRLVLVARLQ-KSTLQEVARTHLELAAI---GLKNQYLVINGVL  238 (296)
T ss_dssp             EEEEEEEESC-HHHHHHHHHHHHHHHHH---TCCCEEEEEEEEC
T ss_pred             ceeeEecCcc-hhHHHHHHHHHHHHHhc---CCCceEEEEcCCc
Confidence            3566666553 55677777777777665   4554 56779864

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=86.17  E-value=0.16  Score=36.49  Aligned_cols=15  Identities=40%  Similarity=0.614  Sum_probs=13.4

Q ss_pred             EEEEcCCCCcHHHHH
Q 043946            6 LLLIGDSGVGKSCLL   20 (198)
Q Consensus         6 i~v~G~~~~GKStli   20 (198)
                      -+++|.+|.|||||-
T Consensus        17 alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            379999999999986

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=85.85  E-value=0.25  Score=34.32  Aligned_cols=18  Identities=33%  Similarity=0.763  Sum_probs=13.6

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 043946            6 LLLIGDSGVGKSCLLLRF   23 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l   23 (198)
                      |++-|..||||||+.-.|
T Consensus        23 ii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            345599999999985554

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=85.80  E-value=0.28  Score=32.49  Aligned_cols=64  Identities=17%  Similarity=0.052  Sum_probs=33.8

Q ss_pred             ccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCCcCCHHHHHHHHHHhCCcEEE
Q 043946           76 AHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVNKLLVGNKCDLTDKKVVSYETAKAFADEIGIPFME  144 (198)
Q Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  144 (198)
                      .+.+++|.+...... .........+...  .....-+|+|+.|....  ...+.++.+.+.++++++-
T Consensus       138 ~~~v~~V~~~~~~~~-~~~~~~~~~~~~~--~~~~~gvv~N~~~~~~~--~~~~~~~~l~~~~gi~vlG  201 (224)
T d1byia_         138 QLPVILVVGVKLGCI-NHAMLTAQVIQHA--GLTLAGWVANDVTPPGK--RHAEYMTTLTRMIPAPLLG  201 (224)
T ss_dssp             TCCEEEEEECSTTHH-HHHHHHHHHHHHT--TCCEEEEEEECCSSCCT--THHHHHHHHHHHSSSCEEE
T ss_pred             cceeeEEEeeccchh-HHHHHHHHHHhcc--CCccEEEEEeCcCCCch--HHHHHHHHHHHHhCCCEEE
Confidence            356666676655433 2223333333332  22355677898885432  2334456666677887653

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=85.61  E-value=0.27  Score=34.46  Aligned_cols=20  Identities=25%  Similarity=0.318  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +.+.|++++|||+|+-.+..
T Consensus        60 tei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHHHH
Confidence            46899999999999977764

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.15  E-value=0.29  Score=34.29  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhc
Q 043946            6 LLLIGDSGVGKSCLLLRFAD   25 (198)
Q Consensus         6 i~v~G~~~~GKStli~~l~~   25 (198)
                      +.+.|++++|||+|+-.+..
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHH
Confidence            46899999999999866653

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=84.87  E-value=0.23  Score=34.92  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhcC
Q 043946            5 KLLLIGDSGVGKSCLLLRFADD   26 (198)
Q Consensus         5 ~i~v~G~~~~GKStli~~l~~~   26 (198)
                      |++|+|.+|+|||+|+..+...
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT
T ss_pred             eEeeccCCCCChHHHHHHHHhh
Confidence            6789999999999998766543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=84.86  E-value=0.3  Score=30.51  Aligned_cols=17  Identities=29%  Similarity=0.524  Sum_probs=13.9

Q ss_pred             EEEcCCCCcHHH-HHHHH
Q 043946            7 LLIGDSGVGKSC-LLLRF   23 (198)
Q Consensus         7 ~v~G~~~~GKSt-li~~l   23 (198)
                      +++|+=.||||| |++++
T Consensus         6 ~i~GpMfsGKTteLi~~~   23 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRL   23 (139)
T ss_dssp             EEECSTTSCHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHH
Confidence            578999999999 56554

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=84.28  E-value=3.2  Score=26.61  Aligned_cols=100  Identities=14%  Similarity=0.208  Sum_probs=52.9

Q ss_pred             ceeEEEEEcC-CCCcHHHHHHHHhcCCCCCCCcccceeeeEEEEEEECCeEEEEEEEeCCCcccc---------------
Q 043946            2 YLFKLLLIGD-SGVGKSCLLLRFADDSYLDSYISTIGVDFKIRTVEQDGKTVKLQIWDTAGQERF---------------   65 (198)
Q Consensus         2 ~~~~i~v~G~-~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------------   65 (198)
                      .++||+|+|. .++|-+. +-+|..+......                 ..+.+.++|.+.....               
T Consensus        23 ~~~kV~I~GA~G~Ig~~l-~~~La~g~v~g~~-----------------~~i~L~L~di~~~~~~l~g~~mdl~d~a~~~   84 (175)
T d7mdha1          23 KLVNIAVSGAAGMISNHL-LFKLASGEVFGQD-----------------QPIALKLLGSERSFQALEGVAMELEDSLYPL   84 (175)
T ss_dssp             CCEEEEEETTTSHHHHHH-HHHHHHTTTTCTT-----------------CCEEEEEECCGGGHHHHHHHHHHHHTTTCTT
T ss_pred             CCcEEEEECCCcHHHHHH-HHHHHcCcccCCC-----------------ceEEEEEecCccccchhcchhhhhccccccc
Confidence            4689999996 6677554 5566655432111                 1134555565542110               


Q ss_pred             ------cccccccccCccEEEEEEECCChh--h-HH-------HHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 043946           66 ------RTITSSYYRGAHGIIIVYDVTDQE--S-FN-------NVKQWLNEIDRYASENVNKLLVGNKCD  119 (198)
Q Consensus        66 ------~~~~~~~~~~~d~~i~v~d~~~~~--s-~~-------~~~~~~~~~~~~~~~~~p~iiv~nK~D  119 (198)
                            .......+.++|++|++-......  + .+       -+......+.++...+..++++.|=.|
T Consensus        85 ~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          85 LREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             EEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             ccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence                  111233467889999987554311  1 11       123344555666555556666666544

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=81.61  E-value=5.2  Score=26.20  Aligned_cols=82  Identities=9%  Similarity=0.021  Sum_probs=47.4

Q ss_pred             EEEEEEeCCCcccccccccccccCccEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCc-EEEEEeCCCCCCCCcCCHHH
Q 043946           52 VKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLNEIDRYASENVN-KLLVGNKCDLTDKKVVSYET  130 (198)
Q Consensus        52 ~~~~i~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~~~~~~~~~~~  130 (198)
                      +.+.++|+|+.-.  ......+..+|.+++|...+ ..++..+......+.+.   +.+ +-+++|+.+....    ...
T Consensus       110 ~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~~----~~~  179 (232)
T d1hyqa_         110 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERL---GTKVLGVVVNRITTLGI----EMA  179 (232)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTTTH----HHH
T ss_pred             cceeeeccccccc--chhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhc---ccccccccccccccccc----cch
Confidence            3368889987543  23334566799999998875 44455555544444444   234 4477899874211    122


Q ss_pred             HHHHHHHhCCcEE
Q 043946          131 AKAFADEIGIPFM  143 (198)
Q Consensus       131 ~~~~~~~~~~~~~  143 (198)
                      ...+.+..+.+++
T Consensus       180 ~~~i~~~~~~~~~  192 (232)
T d1hyqa_         180 KNEIEAILEAKVI  192 (232)
T ss_dssp             HHHHHHHTTSCEE
T ss_pred             hhhHHhhcCCeEE
Confidence            3345555676654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.07  E-value=0.61  Score=31.16  Aligned_cols=19  Identities=21%  Similarity=0.536  Sum_probs=14.5

Q ss_pred             EEEE-cCCCCcHHHHHHHHh
Q 043946            6 LLLI-GDSGVGKSCLLLRFA   24 (198)
Q Consensus         6 i~v~-G~~~~GKStli~~l~   24 (198)
                      |+|. |..|+||||+.-.|.
T Consensus         4 Iav~s~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLG   23 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            4455 788999999987664