Citrus Sinensis ID: 028305

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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-------200-------210
Protein Sequence
MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC
Secondary Structure (PSIPRED)
ccccccccccEEEEEEEEccccccHHHHHHHHHHccccccccccccEEEcccEEEEccEEEEEEEEEcccccccccccccccccccEEEEEEEccccHHHHHHHHHHHHHHHHccccccccccEEEEEEcccccccccccccHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHccccEEEEEEEEcccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHccccccccccEEEEEEcccccccccEEEcHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MDISVNMKRRNLLKVIVLGdsgvgktsLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGsafyrgadCCVLVYDVNVQKTFESLQNWREEFLkqadpgeheacpfvllgnkidtdggssrvvpqkkALEWcayrgnipyfetsakedcniDEAFLCVAEIALKNehkdiyyqpqgiseTVSEVEQRGGCAC
Flexible Loop (DISEMBL)
MDISVNMKRRNLLKVivlgdsgvgkTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC
Low Complexity Region (SEG)
MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC
Disordered region (IsUnstruct)
*********RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP******************
Disordered Region (DISOPRED)
************LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI***************************GCAC
Disordered Region (DISEMBL)
MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE*************
Disordered Region (DISPRO)
*****NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH*************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC
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	210	2.2.26 [Sep-21-2011]
Q43463	206	Ras-related protein Rab7	no	no	0.971	0.990	0.764	3e-89
Q41640	206	Ras-related protein Rab7	N/A	no	0.971	0.990	0.75	4e-88
O04157	203	Ras-related protein RABG3	yes	no	0.961	0.995	0.734	5e-85
Q948K8	206	Ras-related protein RABG3	no	no	0.957	0.975	0.731	4e-84
Q9SJ11	212	Ras-related protein RABG2	no	no	0.966	0.957	0.712	6e-82
O24461	207	Ras-related protein Rab7	N/A	no	0.966	0.980	0.700	1e-78
Q9XER8	207	Ras-related protein Rab7	N/A	no	0.966	0.980	0.696	1e-78
Q9LW76	206	Ras-related protein RABG3	no	no	0.966	0.985	0.679	1e-77
Q9XI98	206	Ras-related protein RABG3	no	no	0.966	0.985	0.669	3e-77
Q9C820	206	Ras-related protein RABG3	no	no	0.980	1.0	0.665	4e-77

>sp|Q43463|RAB7_SOYBN Ras-related protein Rab7 OS=Glycine max PE=2 SV=1

 Score =  327 bits (839), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 159/208 (76%), Positives = 182/208 (87%), Gaps = 4/208 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++++RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSLRRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV K+F++L+NW EEFLKQA+P +  A PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFDTLENWHEEFLKQANPPDPRAFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA +WCA +GNIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAKDWCAAKGNIPYFETSAKEDYNVDAAFLCIAKAALANE 180

Query: 185 H-KDIYYQPQGISE-TVSEVEQRGGCAC 210
           H +DIY+  QGI E  V E EQR GCAC
Sbjct: 181 HEQDIYF--QGIPEAAVPENEQRSGCAC 206

Protein transport. Probably involved in vesicular traffic.
Glycine max (taxid: 3847)

>sp|Q41640|RAB7_VIGAC Ras-related protein Rab7 OS=Vigna aconitifolia PE=2 SV=1

 Score =  323 bits (829), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 156/208 (75%), Positives = 180/208 (86%), Gaps = 4/208 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++++RR LLKVIVLGD+GVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSLRRRTLLKVIVLGDTGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVL YDVNV K+F++L NW EEFLKQA+P +  + PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLAYDVNVMKSFDTLDNWHEEFLKQANPPDPRSFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA +WCA +GNIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAKDWCASKGNIPYFETSAKEDFNVDAAFLCIAKAALANE 180

Query: 185 H-KDIYYQPQGISE-TVSEVEQRGGCAC 210
           H +DIY+  QGI E  V E EQR GCAC
Sbjct: 181 HEQDIYF--QGIPEAAVPENEQRSGCAC 206

Protein transport. Probably involved in vesicular traffic.

Vigna aconitifolia (taxid: 3918)

>sp|O04157|RAG3B_ARATH Ras-related protein RABG3b OS=Arabidopsis thaliana GN=RABG3B PE=1 SV=1

 Score =  313 bits (802), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 152/207 (73%), Positives = 175/207 (84%), Gaps = 5/207 (2%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++ +RR LLKVI+LGDSGVGKTSLMNQYV NKFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSTRRRTLLKVIILGDSGVGKTSLMNQYVNNKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVN  K+FESL NW  EFL +A P +  A PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNHLKSFESLDNWHNEFLTRASPRDPMAFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNK+D DGG+SRVV +KKA EWCA +GNI YFETSAKED N+D++FLC+ ++AL NE
Sbjct: 121 ILLGNKVDIDGGNSRVVSEKKAREWCAEKGNIVYFETSAKEDYNVDDSFLCITKLALANE 180

Query: 185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
             +DIY+QP    +T S  EQRGGCAC
Sbjct: 181 RDQDIYFQP----DTGSVPEQRGGCAC 203

Intracellular vesicle trafficking and protein transport. Functions in autophagy. Involved in xylem and tracheary element differentiation.

Arabidopsis thaliana (taxid: 3702)

>sp|Q948K8|RAG3A_ARATH Ras-related protein RABG3a OS=Arabidopsis thaliana GN=RABG3A PE=2 SV=1

 Score =  310 bits (795), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 150/205 (73%), Positives = 174/205 (84%), Gaps = 4/205 (1%)

Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +RR LLKVIVLGDSGVGKTSLMNQYV+ KFS QYKATIGADFVTKELQ+ +KLVTLQIWD
Sbjct: 4   RRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSMQYKATIGADFVTKELQIGEKLVTLQIWD 63

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG+AFYRGADCC LVYDVNV ++F++L+ W EEFLKQA P + +  PF++L
Sbjct: 64  TAGQERFQSLGAAFYRGADCCALVYDVNVLRSFDNLETWHEEFLKQASPSDPKTFPFIVL 123

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH-K 186
           GNKID DGGSSRVV  KKA +WCA  GNIPYFETSAK+D N+DEAFL +A+ AL NEH +
Sbjct: 124 GNKIDVDGGSSRVVSDKKAADWCASNGNIPYFETSAKDDFNVDEAFLTIAKTALANEHEQ 183

Query: 187 DIYYQPQGISETVSEVEQR-GGCAC 210
           DIY+  QGI + V+E E + GGCAC
Sbjct: 184 DIYF--QGIPDAVTENEPKGGGCAC 206

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJ11|RABG2_ARATH Ras-related protein RABG2 OS=Arabidopsis thaliana GN=RABG2 PE=1 SV=2

 Score =  303 bits (776), Expect = 6e-82,   Method: Compositional matrix adjust.
 Identities = 151/212 (71%), Positives = 173/212 (81%), Gaps = 9/212 (4%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           ++K R LLKVIVLGDSGVGKTSLMNQYVY KF++QYKATIGADFVTKEL +D+K VTLQI
Sbjct: 3   SLKNRTLLKVIVLGDSGVGKTSLMNQYVYKKFNKQYKATIGADFVTKELHIDEKSVTLQI 62

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
           WDTAGQERFQSLG+AFYRGADCCVLVYDVN  K+FE+L NW  EFLKQA+P E E  PFV
Sbjct: 63  WDTAGQERFQSLGAAFYRGADCCVLVYDVNNLKSFETLNNWHTEFLKQANPMEPETFPFV 122

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
           L+GNK D DGG+SRVV  K+A+EWC  +GNIPY ETSAKED NIDEAFL VA IAL NE 
Sbjct: 123 LIGNKTDVDGGNSRVVSNKRAIEWCGSKGNIPYHETSAKEDTNIDEAFLSVAHIALSNER 182

Query: 186 K---DIYYQPQG-ISETVSEV---EQRGGCAC 210
           K   DIY  P+G   ++V+++   +Q  GCAC
Sbjct: 183 KQSNDIY--PRGQYHDSVTDIIDPDQSRGCAC 212

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|O24461|RAB7_PRUAR Ras-related protein Rab7 OS=Prunus armeniaca PE=2 SV=1

 Score =  292 bits (748), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 143/204 (70%), Positives = 163/204 (79%), Gaps = 1/204 (0%)

Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +RR LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+Q +D+L TLQIWD
Sbjct: 4   RRRMLLKVIILGDSGVGKTSLMNQYVNRKFSNQYKATIGADFLTKEVQFEDRLFTLQIWD 63

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLVYDVNV K+FE+L NWREEFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFENLNNWREEFLIQATPSDPENFPFVVL 123

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           GNKID DGG+SRVV +KKA  WCA +GNIPYFETSAKE  N+D+AF C+A+ AL NE ++
Sbjct: 124 GNKIDVDGGNSRVVSEKKAKAWCASKGNIPYFETSAKEGFNVDDAFQCIAKNALNNEPEE 183

Query: 188 IYYQPQGISETVSEVEQR-GGCAC 210
             Y P  I       +QR  GC C
Sbjct: 184 EIYLPDTIDVAGGGRQQRSSGCEC 207

Protein transport. Probably involved in vesicular traffic.

Prunus armeniaca (taxid: 36596)

>sp|Q9XER8|RAB7_GOSHI Ras-related protein Rab7 OS=Gossypium hirsutum GN=RAB7 PE=2 SV=1

 Score =  292 bits (747), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 142/204 (69%), Positives = 162/204 (79%), Gaps = 1/204 (0%)

Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +RR LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+Q DD+L TLQIWD
Sbjct: 4   RRRMLLKVIILGDSGVGKTSLMNQYVNRKFSNQYKATIGADFLTKEVQFDDRLFTLQIWD 63

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLV+DVNV K+F++L NWREEFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVHDVNVMKSFDNLNNWREEFLIQASPSDPENFPFVVL 123

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           GNK+D DGG+SRVV +KKA  WCA +GNIPYFETSAKE  N+D AF C+A  ALKNE ++
Sbjct: 124 GNKVDVDGGNSRVVSEKKAKAWCASKGNIPYFETSAKEGFNVDAAFECIARNALKNEPEE 183

Query: 188 IYYQPQGISETVSEVEQRG-GCAC 210
             Y P+ I        QR  GC C
Sbjct: 184 EIYLPETIDVASGGRPQRSTGCEC 207

Protein transport. Probably involved in vesicular traffic.

Gossypium hirsutum (taxid: 3635)

>sp|Q9LW76|RAG3C_ARATH Ras-related protein RABG3c OS=Arabidopsis thaliana GN=RABG3C PE=2 SV=1

 Score =  289 bits (739), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 138/203 (67%), Positives = 161/203 (79%)

Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +RR LLKVI+LGDSGVGKTSLMNQ+V  KFS QYKATIGADF+TKE+Q+DD++ TLQIWD
Sbjct: 4   RRRVLLKVIILGDSGVGKTSLMNQFVNRKFSNQYKATIGADFLTKEVQIDDRIFTLQIWD 63

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLV DVNV K+FE+L NWREEFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVNDVNVMKSFENLNNWREEFLIQASPSDPENFPFVVL 123

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           GNK D DGG SRVV +KKA  WCA +GNIPYFETSAK+  N+D AF C+A+ ALKNE ++
Sbjct: 124 GNKTDVDGGKSRVVTEKKAKSWCASKGNIPYFETSAKDGVNVDAAFECIAKNALKNEPEE 183

Query: 188 IYYQPQGISETVSEVEQRGGCAC 210
             Y P  I    +  ++  GC C
Sbjct: 184 EVYLPDTIDVAGARQQRSTGCEC 206

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XI98|RAG3E_ARATH Ras-related protein RABG3e OS=Arabidopsis thaliana GN=RABG3E PE=2 SV=1

 Score =  287 bits (735), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 136/203 (66%), Positives = 159/203 (78%)

Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +RR LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+Q +D+L TLQIWD
Sbjct: 4   RRRTLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVQFEDRLFTLQIWD 63

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLVYDVN  K+FE L NWREEFL QA P + E  PFV++
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVYDVNSAKSFEDLNNWREEFLIQASPSDPENFPFVVI 123

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           GNKID DGGSSRVV +KKA  WCA +GNIPY+ETSAK   N+++AFLC+   A+K+  ++
Sbjct: 124 GNKIDVDGGSSRVVSEKKARAWCASKGNIPYYETSAKVGTNVEDAFLCITTNAMKSGEEE 183

Query: 188 IYYQPQGISETVSEVEQRGGCAC 210
             Y P  I    S  ++  GC C
Sbjct: 184 EMYLPDTIDVGTSNPQRSTGCEC 206

Intracellular vesicle trafficking and protein transport. May play a role in adaptation to stress by recylcing macromolecules in specific cellular compartments.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C820|RAG3D_ARATH Ras-related protein RABG3d OS=Arabidopsis thaliana GN=RABG3D PE=2 SV=1

 Score =  287 bits (734), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 137/206 (66%), Positives = 162/206 (78%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++ +RR LLKVI+LGDSGVGKTSLMNQ+V  KFS QYKATIGADF+TKE+Q+DD++ TLQ
Sbjct: 1   MSSRRRVLLKVIILGDSGVGKTSLMNQFVNRKFSNQYKATIGADFLTKEVQIDDRIFTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV K+F++L NWREEFL QA P + E  PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFDNLNNWREEFLIQASPSDPENFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           V+LGNK D DGG SRVV +KKA  WCA +GNIPYFETSAKE  N+D AF C+ + A KNE
Sbjct: 121 VVLGNKTDVDGGKSRVVSEKKAKAWCASKGNIPYFETSAKEGFNVDAAFECITKNAFKNE 180

Query: 185 HKDIYYQPQGISETVSEVEQRGGCAC 210
            ++  Y P  I     + ++  GC C
Sbjct: 181 PEEEPYLPDTIDVAGGQQQRSTGCEC 206

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

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	210
255582823	209	protein with unknown function [Ricinus c	0.990	0.995	0.800	4e-92
225438533	205	PREDICTED: ras-related protein Rab7 [Vit	0.952	0.975	0.793	7e-90
356512758	207	PREDICTED: ras-related protein Rab7-like	0.980	0.995	0.763	5e-89
255572331	205	protein with unknown function [Ricinus c	0.971	0.995	0.768	9e-89
225463105	205	PREDICTED: ras-related protein Rab7 isof	0.971	0.995	0.763	1e-88
224062828	205	predicted protein [Populus trichocarpa]	0.971	0.995	0.763	2e-88
449444034	205	PREDICTED: ras-related protein Rab7-like	0.971	0.995	0.763	2e-88
357519661	209	Ras-related protein Rab7 [Medicago trunc	0.990	0.995	0.753	2e-88
356576109	206	PREDICTED: ras-related protein Rab7-like	0.971	0.990	0.764	1e-87
388497440	209	unknown [Medicago truncatula]	0.990	0.995	0.748	1e-87

>gi|255582823|ref|XP_002532185.1| protein with unknown function [Ricinus communis] gi|223528133|gb|EEF30203.1| protein with unknown function [Ricinus communis]

 Score =  342 bits (878), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 169/211 (80%), Positives = 186/211 (88%), Gaps = 3/211 (1%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MD+S N KRR LLKVIVLGDSGVGKTSLMNQYVY KFSQQYKATIGADFVTKELQ+++K+
Sbjct: 1   MDMSNNYKRRALLKVIVLGDSGVGKTSLMNQYVYKKFSQQYKATIGADFVTKELQLEEKV 60

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK+FE+L NW EEF+KQADP   +
Sbjct: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKSFETLNNWHEEFIKQADPIYPD 120

Query: 121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA 180
           A PF+LLGNKID DGG+SRVV +KKA EWCA  G IPYFETSAKED  +DEAFLCVA+ A
Sbjct: 121 AFPFILLGNKIDIDGGNSRVVSEKKAREWCASNGGIPYFETSAKEDYGVDEAFLCVAKTA 180

Query: 181 LKNE-HKDIYYQPQGISETVSEVEQRGGCAC 210
           L +E   DIY+  QGISE+VSEVEQRGGCAC
Sbjct: 181 LDSEPEHDIYF--QGISESVSEVEQRGGCAC 209

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225438533|ref|XP_002279477.1| PREDICTED: ras-related protein Rab7 [Vitis vinifera] gi|296082518|emb|CBI21523.3| unnamed protein product [Vitis vinifera]

 Score =  335 bits (859), Expect = 7e-90,   Method: Compositional matrix adjust.
 Identities = 161/203 (79%), Positives = 179/203 (88%), Gaps = 3/203 (1%)

Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           RR LLKVIVLGDSGVGKTSLMNQYVY KFSQQYKATIGADFVTKELQ+DDKLVTLQ+WDT
Sbjct: 5   RRTLLKVIVLGDSGVGKTSLMNQYVYKKFSQQYKATIGADFVTKELQIDDKLVTLQLWDT 64

Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQERFQSLGSAFYRGADCCVLVYDVNV K+FESLQ+W EEFLKQADP E E  PFV+LG
Sbjct: 65  AGQERFQSLGSAFYRGADCCVLVYDVNVLKSFESLQSWHEEFLKQADPAEPEVFPFVVLG 124

Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH-KD 187
           NK+D DGG+SRVV +++A EWCA RG+IPYFETSAKED N+D AFLCVA + L NEH ++
Sbjct: 125 NKVDVDGGNSRVVSERRAREWCASRGDIPYFETSAKEDFNVDAAFLCVARVGLSNEHGQE 184

Query: 188 IYYQPQGISETVSEVEQRGGCAC 210
            Y+  + ISE VSE EQ+GGCAC
Sbjct: 185 NYF--RAISEVVSETEQKGGCAC 205

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512758|ref|XP_003525083.1| PREDICTED: ras-related protein Rab7-like [Glycine max]

 Score =  332 bits (852), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 161/211 (76%), Positives = 184/211 (87%), Gaps = 5/211 (2%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MDIS   ++R LLK+IVLGDSGVGKTSLMNQYVY KFSQQYKATIGADFVTKE+Q+DDKL
Sbjct: 1   MDIS--QRKRTLLKIIVLGDSGVGKTSLMNQYVYRKFSQQYKATIGADFVTKEIQVDDKL 58

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           VTLQIWDTAGQERF S+G+AFYRGADCCVLVYDVN+ KTF++L NW +EFLKQ D  + E
Sbjct: 59  VTLQIWDTAGQERFHSIGAAFYRGADCCVLVYDVNIHKTFDTLNNWHDEFLKQGDMNDPE 118

Query: 121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA 180
           A PFVLLGNK+D DGG+SR V +KKA +WCA RGNIPYFETSAKE  N++EAFLCVA+IA
Sbjct: 119 AFPFVLLGNKVDVDGGNSRRVTEKKARDWCASRGNIPYFETSAKEGYNVEEAFLCVAKIA 178

Query: 181 LKNEH-KDIYYQPQGISETVSEVEQRGGCAC 210
           L+NEH +DIY+  +GISE VSE EQR GCAC
Sbjct: 179 LENEHDQDIYF--RGISEAVSEAEQRSGCAC 207

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572331|ref|XP_002527104.1| protein with unknown function [Ricinus communis] gi|223533527|gb|EEF35267.1| protein with unknown function [Ricinus communis]

 Score =  331 bits (849), Expect = 9e-89,   Method: Compositional matrix adjust.
 Identities = 159/207 (76%), Positives = 182/207 (87%), Gaps = 3/207 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++++RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSVRRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV ++F++L NW EEFLKQA+P + +  PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMRSFDALDNWHEEFLKQANPPDPKTFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA EWCA +GNIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAKEWCASKGNIPYFETSAKEDYNVDPAFLCIAKTALANE 180

Query: 185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
             +DIY+  QGI E VSE EQRGGCAC
Sbjct: 181 REQDIYF--QGIPEAVSESEQRGGCAC 205

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463105|ref|XP_002264356.1| PREDICTED: ras-related protein Rab7 isoform 1 [Vitis vinifera] gi|297739360|emb|CBI29350.3| unnamed protein product [Vitis vinifera]

 Score =  331 bits (848), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 158/207 (76%), Positives = 181/207 (87%), Gaps = 3/207 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++ +RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSARRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV ++F++L NW EEFLKQA+P + +  PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMRSFDTLDNWHEEFLKQANPSDPKTFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA +WCA +GNIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSKKKAEDWCASKGNIPYFETSAKEDYNVDAAFLCIAKTALANE 180

Query: 185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
           H +DIY+  QGI E VSE EQ GGCAC
Sbjct: 181 HEQDIYF--QGIPEAVSETEQGGGCAC 205

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224062828|ref|XP_002300895.1| predicted protein [Populus trichocarpa] gi|118486942|gb|ABK95304.1| unknown [Populus trichocarpa] gi|222842621|gb|EEE80168.1| predicted protein [Populus trichocarpa]

 Score =  330 bits (847), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 158/207 (76%), Positives = 179/207 (86%), Gaps = 3/207 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++ +RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSTRRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV ++F++L NW EEFLKQA P +    PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMRSFDTLDNWHEEFLKQATPSDPRTFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA +WCA +GNIPYFETSAKED N+D AFL +A+IAL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAKDWCASKGNIPYFETSAKEDYNVDPAFLSIAKIALANE 180

Query: 185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
           H +DIY+  QGI E  SE EQRGGCAC
Sbjct: 181 HEQDIYF--QGIPEAASESEQRGGCAC 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444034|ref|XP_004139780.1| PREDICTED: ras-related protein Rab7-like [Cucumis sativus] gi|449502892|ref|XP_004161772.1| PREDICTED: ras-related protein Rab7-like [Cucumis sativus]

 Score =  330 bits (846), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 158/207 (76%), Positives = 180/207 (86%), Gaps = 3/207 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++ +RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSFRRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV K+F++L NW +EFL+QA+P +    PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFDTLDNWHDEFLRQANPPDPRTFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA EWCA + NIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAREWCASKENIPYFETSAKEDYNVDAAFLCIAKTALANE 180

Query: 185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
           H +DIY+  QGI ETV E EQRGGCAC
Sbjct: 181 HEQDIYF--QGIPETVVETEQRGGCAC 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357519661|ref|XP_003630119.1| Ras-related protein Rab7 [Medicago truncatula] gi|355524141|gb|AET04595.1| Ras-related protein Rab7 [Medicago truncatula]

 Score =  330 bits (846), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 159/211 (75%), Positives = 182/211 (86%), Gaps = 3/211 (1%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MDIS + ++R LLKVIVLGDSGVGKTSLMNQYVY KFSQQYKATIGADFVTKEL +DDKL
Sbjct: 1   MDISSSHRKRTLLKVIVLGDSGVGKTSLMNQYVYKKFSQQYKATIGADFVTKELLVDDKL 60

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           VTLQIWDTAGQERF SLG+AFYRGADCCVLVYDVN+ KTF++L NW ++FLKQAD G  +
Sbjct: 61  VTLQIWDTAGQERFHSLGAAFYRGADCCVLVYDVNIHKTFDTLNNWHDDFLKQADTGNPD 120

Query: 121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA 180
           A PFVLLGNK+D DGG+SR V +KKA EWCA RG+IPYFETSAKE  N+D+AFLCVA++A
Sbjct: 121 AFPFVLLGNKVDVDGGNSRRVTEKKAREWCASRGSIPYFETSAKEGYNVDDAFLCVAKVA 180

Query: 181 LKNEHK-DIYYQPQGISETVSEVEQRGGCAC 210
            +N+H  DIY+  +GISET SE EQR  CAC
Sbjct: 181 SENDHDLDIYF--RGISETPSEAEQRSNCAC 209

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576109|ref|XP_003556176.1| PREDICTED: ras-related protein Rab7-like [Glycine max] gi|3914559|sp|Q43463.1|RAB7_SOYBN RecName: Full=Ras-related protein Rab7 gi|414834|gb|AAA34004.1| Rab7p [Glycine max]

 Score =  327 bits (839), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 159/208 (76%), Positives = 182/208 (87%), Gaps = 4/208 (1%)

Query: 5   VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           ++++RR LLKVIVLGDSGVGKTSLMNQYV+ KFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct: 1   MSLRRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           IWDTAGQERFQSLG AFYRGADCCVLVYDVNV K+F++L+NW EEFLKQA+P +  A PF
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFDTLENWHEEFLKQANPPDPRAFPF 120

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +LLGNKID DGG+SRVV +KKA +WCA +GNIPYFETSAKED N+D AFLC+A+ AL NE
Sbjct: 121 ILLGNKIDIDGGNSRVVSEKKAKDWCAAKGNIPYFETSAKEDYNVDAAFLCIAKAALANE 180

Query: 185 H-KDIYYQPQGISE-TVSEVEQRGGCAC 210
           H +DIY+  QGI E  V E EQR GCAC
Sbjct: 181 HEQDIYF--QGIPEAAVPENEQRSGCAC 206

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388497440|gb|AFK36786.1| unknown [Medicago truncatula]

 Score =  327 bits (839), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 158/211 (74%), Positives = 181/211 (85%), Gaps = 3/211 (1%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MDIS + ++R LLKVIVLGDSGVGKTSLMNQYVY KFSQQYKATIGADFVTKEL +DDKL
Sbjct: 1   MDISSSHRKRTLLKVIVLGDSGVGKTSLMNQYVYKKFSQQYKATIGADFVTKELLVDDKL 60

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           VTLQIWDTAGQERF SLG+AFYRGADCCVLVYDVN+ KTF++L NW ++FLKQAD G  +
Sbjct: 61  VTLQIWDTAGQERFHSLGAAFYRGADCCVLVYDVNIHKTFDTLNNWHDDFLKQADTGNPD 120

Query: 121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA 180
           A PFVLLGNK+D DGG+SR V +KKA EWCA RG+IPYFETSAKE  N+D+AFLCVA++A
Sbjct: 121 AFPFVLLGNKVDVDGGNSRRVTEKKAREWCASRGSIPYFETSAKEGYNVDDAFLCVAKVA 180

Query: 181 LKNEHK-DIYYQPQGISETVSEVEQRGGCAC 210
            +N+H  DIY+  +GI ET SE EQR  CAC
Sbjct: 181 SENDHDLDIYF--RGIFETPSEAEQRSNCAC 209

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	210
TAIR|locus:2199716	203	RABG3B "RAB GTPase homolog G3B	0.961	0.995	0.734	5.4e-79
TAIR|locus:2052479	212	RAB7A "RAB GTPase homolog 7A"	0.966	0.957	0.712	1e-75
TAIR|locus:2118500	217	RABG3A "RAB GTPase homolog G3A	0.957	0.926	0.694	2.7e-75
TAIR|locus:2093437	206	RABG3c "RAB GTPase homolog G3C	0.966	0.985	0.679	6.7e-72
TAIR|locus:2018124	206	RABG3d "RAB GTPase homolog G3D	0.980	1.0	0.665	8.6e-72
TAIR|locus:2094029	206	RAB7B "RAB GTPase homolog G3F"	0.966	0.985	0.674	1.1e-71
TAIR|locus:2010257	206	RABG3E "RAB GTPase homolog G3E	0.966	0.985	0.669	1.8e-71
DICTYBASE|DDB_G0269236	203	rab7A "Rab GTPase" [Dictyostel	0.947	0.980	0.631	4.7e-64
ASPGD|ASPL0000062908	205	avaA [Emericella nidulans (tax	0.976	1.0	0.592	8.8e-63
ZFIN|ZDB-GENE-040704-16	204	zgc:91909 "zgc:91909" [Danio r	0.952	0.980	0.622	3e-62

TAIR|locus:2199716 RABG3B "RAB GTPase homolog G3B" [Arabidopsis thaliana (taxid:3702)]

 Score = 794 (284.6 bits), Expect = 5.4e-79, P = 5.4e-79
 Identities = 152/207 (73%), Positives = 175/207 (84%)

Query:     5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
             ++ +RR LLKVI+LGDSGVGKTSLMNQYV NKFSQQYKATIGADFVTKELQ+DD+LVTLQ
Sbjct:     1 MSTRRRTLLKVIILGDSGVGKTSLMNQYVNNKFSQQYKATIGADFVTKELQIDDRLVTLQ 60

Query:    65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
             IWDTAGQERFQSLG AFYRGADCCVLVYDVN  K+FESL NW  EFL +A P +  A PF
Sbjct:    61 IWDTAGQERFQSLGVAFYRGADCCVLVYDVNHLKSFESLDNWHNEFLTRASPRDPMAFPF 120

Query:   125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
             +LLGNK+D DGG+SRVV +KKA EWCA +GNI YFETSAKED N+D++FLC+ ++AL NE
Sbjct:   121 ILLGNKVDIDGGNSRVVSEKKAREWCAEKGNIVYFETSAKEDYNVDDSFLCITKLALANE 180

Query:   185 H-KDIYYQPQGISETVSEVEQRGGCAC 210
               +DIY+QP    +T S  EQRGGCAC
Sbjct:   181 RDQDIYFQP----DTGSVPEQRGGCAC 203

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005773 "vacuole" evidence=IDA

GO:0010089 "xylem development" evidence=IMP

GO:0010508 "positive regulation of autophagy" evidence=IMP

GO:0010623 "developmental programmed cell death" evidence=IMP

GO:0048102 "autophagic cell death" evidence=IMP

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

TAIR|locus:2052479 RAB7A "RAB GTPase homolog 7A" [Arabidopsis thaliana (taxid:3702)]

 Score = 763 (273.6 bits), Expect = 1.0e-75, P = 1.0e-75
 Identities = 151/212 (71%), Positives = 173/212 (81%)

Query:     6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
             ++K R LLKVIVLGDSGVGKTSLMNQYVY KF++QYKATIGADFVTKEL +D+K VTLQI
Sbjct:     3 SLKNRTLLKVIVLGDSGVGKTSLMNQYVYKKFNKQYKATIGADFVTKELHIDEKSVTLQI 62

Query:    66 WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
             WDTAGQERFQSLG+AFYRGADCCVLVYDVN  K+FE+L NW  EFLKQA+P E E  PFV
Sbjct:    63 WDTAGQERFQSLGAAFYRGADCCVLVYDVNNLKSFETLNNWHTEFLKQANPMEPETFPFV 122

Query:   126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
             L+GNK D DGG+SRVV  K+A+EWC  +GNIPY ETSAKED NIDEAFL VA IAL NE 
Sbjct:   123 LIGNKTDVDGGNSRVVSNKRAIEWCGSKGNIPYHETSAKEDTNIDEAFLSVAHIALSNER 182

Query:   186 K---DIYYQPQG-ISETVSEV---EQRGGCAC 210
             K   DIY  P+G   ++V+++   +Q  GCAC
Sbjct:   183 KQSNDIY--PRGQYHDSVTDIIDPDQSRGCAC 212

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

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

GO:0015031 "protein transport" evidence=IEA

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

TAIR|locus:2118500 RABG3A "RAB GTPase homolog G3A" [Arabidopsis thaliana (taxid:3702)]

 Score = 759 (272.2 bits), Expect = 2.7e-75, P = 2.7e-75
 Identities = 150/216 (69%), Positives = 174/216 (80%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             +RR LLKVIVLGDSGVGKTSLMNQYV+ KFS QYKATIGADFVTKELQ+ +KLVTLQIWD
Sbjct:     4 RRRTLLKVIVLGDSGVGKTSLMNQYVHKKFSMQYKATIGADFVTKELQIGEKLVTLQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQA-----------DP 116
             TAGQERFQSLG+AFYRGADCC LVYDVNV ++F++L+ W EEFLKQA            P
Sbjct:    64 TAGQERFQSLGAAFYRGADCCALVYDVNVLRSFDNLETWHEEFLKQAWNIGMWTIAEASP 123

Query:   117 GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
              + +  PF++LGNKID DGGSSRVV  KKA +WCA  GNIPYFETSAK+D N+DEAFL +
Sbjct:   124 SDPKTFPFIVLGNKIDVDGGSSRVVSDKKAADWCASNGNIPYFETSAKDDFNVDEAFLTI 183

Query:   177 AEIALKNEHK-DIYYQPQGISETVSEVEQRGG-CAC 210
             A+ AL NEH+ DIY+Q  GI + V+E E +GG CAC
Sbjct:   184 AKTALANEHEQDIYFQ--GIPDAVTENEPKGGGCAC 217

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

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

TAIR|locus:2093437 RABG3c "RAB GTPase homolog G3C" [Arabidopsis thaliana (taxid:3702)]

 Score = 727 (261.0 bits), Expect = 6.7e-72, P = 6.7e-72
 Identities = 138/203 (67%), Positives = 161/203 (79%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             +RR LLKVI+LGDSGVGKTSLMNQ+V  KFS QYKATIGADF+TKE+Q+DD++ TLQIWD
Sbjct:     4 RRRVLLKVIILGDSGVGKTSLMNQFVNRKFSNQYKATIGADFLTKEVQIDDRIFTLQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             TAGQERFQSLG AFYRGADCCVLV DVNV K+FE+L NWREEFL QA P + E  PFV+L
Sbjct:    64 TAGQERFQSLGVAFYRGADCCVLVNDVNVMKSFENLNNWREEFLIQASPSDPENFPFVVL 123

Query:   128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
             GNK D DGG SRVV +KKA  WCA +GNIPYFETSAK+  N+D AF C+A+ ALKNE ++
Sbjct:   124 GNKTDVDGGKSRVVTEKKAKSWCASKGNIPYFETSAKDGVNVDAAFECIAKNALKNEPEE 183

Query:   188 IYYQPQGISETVSEVEQRGGCAC 210
               Y P  I    +  ++  GC C
Sbjct:   184 EVYLPDTIDVAGARQQRSTGCEC 206

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

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

TAIR|locus:2018124 RABG3d "RAB GTPase homolog G3D" [Arabidopsis thaliana (taxid:3702)]

 Score = 726 (260.6 bits), Expect = 8.6e-72, P = 8.6e-72
 Identities = 137/206 (66%), Positives = 162/206 (78%)

Query:     5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
             ++ +RR LLKVI+LGDSGVGKTSLMNQ+V  KFS QYKATIGADF+TKE+Q+DD++ TLQ
Sbjct:     1 MSSRRRVLLKVIILGDSGVGKTSLMNQFVNRKFSNQYKATIGADFLTKEVQIDDRIFTLQ 60

Query:    65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
             IWDTAGQERFQSLG AFYRGADCCVLVYDVNV K+F++L NWREEFL QA P + E  PF
Sbjct:    61 IWDTAGQERFQSLGVAFYRGADCCVLVYDVNVMKSFDNLNNWREEFLIQASPSDPENFPF 120

Query:   125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
             V+LGNK D DGG SRVV +KKA  WCA +GNIPYFETSAKE  N+D AF C+ + A KNE
Sbjct:   121 VVLGNKTDVDGGKSRVVSEKKAKAWCASKGNIPYFETSAKEGFNVDAAFECITKNAFKNE 180

Query:   185 HKDIYYQPQGISETVSEVEQRGGCAC 210
              ++  Y P  I     + ++  GC C
Sbjct:   181 PEEEPYLPDTIDVAGGQQQRSTGCEC 206

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:0005774 "vacuolar membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

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

TAIR|locus:2094029 RAB7B "RAB GTPase homolog G3F" [Arabidopsis thaliana (taxid:3702)]

 Score = 725 (260.3 bits), Expect = 1.1e-71, P = 1.1e-71
 Identities = 137/203 (67%), Positives = 160/203 (78%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             +RR LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+Q +D+L TLQIWD
Sbjct:     4 RRRTLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVQFEDRLFTLQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             TAGQERFQSLG AFYRGADCCVLVYDVN  K+FE+L NWREEFL QA P + E  PFVL+
Sbjct:    64 TAGQERFQSLGVAFYRGADCCVLVYDVNSMKSFENLNNWREEFLIQASPSDPENFPFVLI 123

Query:   128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
             GNK+D D G+SRVV +KKA  WCA +GNIPYFETSAK   N++EAF C+A+ ALK+  ++
Sbjct:   124 GNKVDVDDGNSRVVSEKKAKAWCASKGNIPYFETSAKVGTNVEEAFQCIAKDALKSGEEE 183

Query:   188 IYYQPQGISETVSEVEQRGGCAC 210
               Y P  I    S  ++  GC C
Sbjct:   184 ELYLPDTIDVGTSNQQRSTGCEC 206

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0006457 "protein folding" evidence=RCA

GO:0007030 "Golgi organization" evidence=RCA

GO:0007033 "vacuole organization" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

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

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

TAIR|locus:2010257 RABG3E "RAB GTPase homolog G3E" [Arabidopsis thaliana (taxid:3702)]

 Score = 723 (259.6 bits), Expect = 1.8e-71, P = 1.8e-71
 Identities = 136/203 (66%), Positives = 159/203 (78%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             +RR LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+Q +D+L TLQIWD
Sbjct:     4 RRRTLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVQFEDRLFTLQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             TAGQERFQSLG AFYRGADCCVLVYDVN  K+FE L NWREEFL QA P + E  PFV++
Sbjct:    64 TAGQERFQSLGVAFYRGADCCVLVYDVNSAKSFEDLNNWREEFLIQASPSDPENFPFVVI 123

Query:   128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
             GNKID DGGSSRVV +KKA  WCA +GNIPY+ETSAK   N+++AFLC+   A+K+  ++
Sbjct:   124 GNKIDVDGGSSRVVSEKKARAWCASKGNIPYYETSAKVGTNVEDAFLCITTNAMKSGEEE 183

Query:   188 IYYQPQGISETVSEVEQRGGCAC 210
               Y P  I    S  ++  GC C
Sbjct:   184 EMYLPDTIDVGTSNPQRSTGCEC 206

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0006979 "response to oxidative stress" evidence=IEP;IMP

GO:0009651 "response to salt stress" evidence=IMP

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

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

DICTYBASE|DDB_G0269236 rab7A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 127/201 (63%), Positives = 153/201 (76%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             K++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKEL +DD++VT+QIWD
Sbjct:     4 KKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKELMVDDRVVTMQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             TAGQERFQSLG AFYRGADCCVL YDVNV KTFE+L +WR+EFL QA P + +  PFV+L
Sbjct:    64 TAGQERFQSLGVAFYRGADCCVLCYDVNVAKTFENLDSWRDEFLIQAGPRDPDNFPFVVL 123

Query:   128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
             GNKID +  + RVV QK+A  WC  +GNIPYFETSAKE  N+++AF  +A  A+K E   
Sbjct:   124 GNKIDLE--NQRVVSQKRAASWCQSKGNIPYFETSAKEAINVEQAFQTIARNAIKLEDGL 181

Query:   188 IYYQPQGISETVSEVEQRGGC 208
             ++  P  I         + GC
Sbjct:   182 VFPIPTNIQVIPEPQPAKSGC 202

GO:0005615 "extracellular space" evidence=IDA

GO:0032010 "phagolysosome" evidence=IDA

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0005764 "lysosome" evidence=IDA

GO:0006909 "phagocytosis" evidence=IMP

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

ASPGD|ASPL0000062908 avaA [Emericella nidulans (taxid:162425)]

 Score = 641 (230.7 bits), Expect = 8.8e-63, P = 8.8e-63
 Identities = 122/206 (59%), Positives = 157/206 (76%)

Query:     5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
             ++ +++ +LKVI+LGDSGVGKTSLMNQYV  KFS  YKATIGADF+TKE+ +DD+LVT+Q
Sbjct:     1 MSSRKKVMLKVIILGDSGVGKTSLMNQYVNKKFSGSYKATIGADFLTKEVLVDDRLVTMQ 60

Query:    65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
             IWDTAGQERFQSLG AFYRGADCCVLVYDVN  K+FE+L +WR+EFL QA P + E+ PF
Sbjct:    61 IWDTAGQERFQSLGVAFYRGADCCVLVYDVNNSKSFEALDSWRDEFLIQASPRDPESFPF 120

Query:   125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
             V++GNKID +  S R++  K+A+ +C  +GNIPYFETSAKE  N+++AF  +A  AL  E
Sbjct:   121 VVIGNKIDMEE-SKRMISSKRAMTFCQSKGNIPYFETSAKEAVNVEQAFEVIARSALAQE 179

Query:   185 HKDIYYQPQGISETVSEVEQRGGCAC 210
               + Y         + +  +R GCAC
Sbjct:   180 EAEEYGGDYTDPINIHDTTERDGCAC 205

GO:0042144 "vacuole fusion, non-autophagic" evidence=IMP

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0007032 "endosome organization" evidence=IMP

GO:0000329 "fungal-type vacuole membrane" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0030906 "retromer complex, inner shell" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0072665 "protein localization to vacuole" evidence=IEA

GO:0061191 "positive regulation of vacuole fusion, non-autophagic" evidence=IEA

GO:0030100 "regulation of endocytosis" evidence=IEA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IEA

GO:0007035 "vacuolar acidification" evidence=IEA

GO:0045324 "late endosome to vacuole transport" evidence=IEA

GO:0034727 "piecemeal microautophagy of nucleus" evidence=IEA

GO:0031321 "ascospore-type prospore assembly" evidence=IEA

GO:0000011 "vacuole inheritance" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0051469 "vesicle fusion with vacuole" evidence=IEA

ZFIN|ZDB-GENE-040704-16 zgc:91909 "zgc:91909" [Danio rerio (taxid:7955)]

 Score = 636 (228.9 bits), Expect = 3.0e-62, P = 3.0e-62
 Identities = 127/204 (62%), Positives = 150/204 (73%)

Query:     8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
             +++ LLKVI+LGDSGVGKTSLMNQYV NKFS QYKATIGADF+TKE+ +DD+LVT+QIWD
Sbjct:     4 RKKVLLKVIILGDSGVGKTSLMNQYVNNKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63

Query:    68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             TAGQERFQSLG AFYRGADCCVLVYDV    TF++L +WR+EFL QA   + E  PFV+L
Sbjct:    64 TAGQERFQSLGVAFYRGADCCVLVYDVTAPTTFKTLDSWRDEFLIQASTSDPENFPFVVL 123

Query:   128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
             GNKID D   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E  D
Sbjct:   124 GNKIDLD---NRQVSTKRAQAWCQSKNNIPYFETSAKEAINVEQAFQTIARNALKQESVD 180

Query:   188 IYYQPQGISETVSEVEQRG-GCAC 210
              Y  P  I          G GC+C
Sbjct:   181 KYDFPDEIKLGNDRPMSNGEGCSC 204

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0000166 "nucleotide binding" 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)
P51149	RAB7A_HUMAN	No assigned EC number	0.6610	0.8285	0.8405	yes	no
O04157	RAG3B_ARATH	No assigned EC number	0.7342	0.9619	0.9950	yes	no
P93267	RAB7_MESCR	No assigned EC number	0.6715	0.9666	0.9806	N/A	no
Q9SJ11	RABG2_ARATH	No assigned EC number	0.7122	0.9666	0.9575	no	no
Q9C2L8	RAB7_NEUCR	No assigned EC number	0.5862	0.9619	0.9853	N/A	no
Q40787	RAB7_CENCI	No assigned EC number	0.6699	0.9666	0.9854	N/A	no
Q6DUB4	RAB7B_PAROT	No assigned EC number	0.5392	0.9476	0.9660	N/A	no
Q948K8	RAG3A_ARATH	No assigned EC number	0.7317	0.9571	0.9757	no	no
P09527	RAB7A_RAT	No assigned EC number	0.5951	0.9523	0.9661	yes	no
P32939	YPT7_YEAST	No assigned EC number	0.5911	0.8523	0.8605	yes	no
P36411	RAB7A_DICDI	No assigned EC number	0.6318	0.9476	0.9802	yes	no
P51150	RAB7A_MOUSE	No assigned EC number	0.6610	0.8285	0.8405	yes	no
O94655	YPT7_SCHPO	No assigned EC number	0.6666	0.8523	0.8731	yes	no
Q95UJ0	RAB7A_PAROT	No assigned EC number	0.5441	0.9476	0.9660	N/A	no
Q3T0F5	RAB7A_BOVIN	No assigned EC number	0.5845	0.9523	0.9661	yes	no
Q41640	RAB7_VIGAC	No assigned EC number	0.75	0.9714	0.9902	N/A	no
P36864	YPTV5_VOLCA	No assigned EC number	0.6097	0.9666	0.9902	N/A	no
P31022	RAB7_PEA	No assigned EC number	0.6748	0.9666	0.9854	N/A	no
Q43463	RAB7_SOYBN	No assigned EC number	0.7644	0.9714	0.9902	no	no
Q5R9Y4	RAB7A_PONAB	No assigned EC number	0.6610	0.8285	0.8405	yes	no
O24461	RAB7_PRUAR	No assigned EC number	0.7009	0.9666	0.9806	N/A	no
P18067	RAB7A_CANFA	No assigned EC number	0.6610	0.8285	0.8405	yes	no
Q39573	YPTC5_CHLRE	No assigned EC number	0.6292	0.9714	0.9902	N/A	no
Q9XER8	RAB7_GOSHI	No assigned EC number	0.6960	0.9666	0.9806	N/A	no
O97572	RAB7A_RABIT	No assigned EC number	0.5748	0.9523	0.9661	yes	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	210
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	1e-113
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	7e-86
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	3e-79
pfam00071	162	pfam00071, Ras, Ras family	1e-70
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	1e-65
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	5e-54
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	9e-53
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-51
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-51
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	3e-51
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	6e-50
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-48
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-46
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	6e-42
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-41
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	9e-41
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	7e-40
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-39
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	1e-38
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-38
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	9e-38
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-37
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	5e-37
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	1e-36
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	2e-36
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-36
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	7e-36
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	5e-35
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-34
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	4e-34
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	5e-34
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	1e-33
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-33
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-33
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	5e-33
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	4e-32
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-31
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	2e-31
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	4e-31
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	7e-31
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-30
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	4e-30
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	7e-30
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	5e-29
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	8e-29
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-28
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	5e-28
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-27
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-27
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-26
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	3e-26
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	6e-26
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-25
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-25
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	9e-25
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	2e-24
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	3e-24
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-24
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	4e-23
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	5e-23
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	9e-23
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	2e-22
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	4e-22
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	6e-22
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-20
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-19
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	8e-19
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	9e-19
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	1e-18
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-17
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	3e-17
pfam08477	116	pfam08477, Miro, Miro-like protein	5e-17
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	5e-16
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	8e-16
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-15
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	8e-15
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	2e-14
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	7e-13
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	2e-12
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	2e-12
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	3e-12
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	4e-12
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	4e-12
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	4e-12
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	6e-12
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	2e-11
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-11
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	3e-11
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	1e-10
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	3e-10
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-09
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	1e-09
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	5e-09
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	3e-08
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	1e-06
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	5e-06
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	5e-06
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	7e-06
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	1e-05
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	3e-05
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	4e-05
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	5e-05
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	6e-05
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	3e-04
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	5e-04
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	6e-04
TIGR00491	590	TIGR00491, aIF-2, translation initiation factor aI	6e-04
PRK14845	1049	PRK14845, PRK14845, translation initiation factor	8e-04
PRK04004	586	PRK04004, PRK04004, translation initiation factor	0.002
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	0.002

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

 Score =  319 bits (820), Expect = e-113
 Identities = 122/173 (70%), Positives = 140/173 (80%), Gaps = 2/173 (1%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVTLQIWDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RFQSLG AFYRGADCCVLVYDV   K+FESL +WR+EFL QA P + E  PFV+LGNKID
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
            +    R V  KKA +WC  +GNIPYFETSAKE  N+D+AF  +A +AL+ E 
Sbjct: 121 LE--EKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALEQEK 171

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  250 bits (641), Expect = 7e-86
 Identities = 79/171 (46%), Positives = 118/171 (69%), Gaps = 7/171 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+I++GDSGVGK+SL++++   KFS+QYK+TIG DF TK +++D K V LQIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+ S++YRGA   +LVYD+  +++FE+L+NW +E  + A P        +L+GNK D
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPN----VVIMLVGNKSD 116

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            +    R V +++A  +      +P+FETSAK + N++EAF  +A   LK 
Sbjct: 117 LE--EQRQVSREEAEAFAE-EHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  233 bits (597), Expect = 3e-79
 Identities = 78/166 (46%), Positives = 112/166 (67%), Gaps = 7/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GDSGVGKTSL+ ++V NKFS+ YK+TIG DF +K +++D K V LQIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+ S++YRGA   +LVYDV  +++FE+L  W  E  + A P      P +L+GNK D
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPN----IPIILVGNKSD 116

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
            +    R V  ++A ++      + +FETSAK   N+DEAF  +A 
Sbjct: 117 LE--DERQVSTEEAQQFAK-ENGLLFFETSAKTGENVDEAFESLAR 159

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|215692 pfam00071, Ras, Ras family

 Score =  211 bits (541), Expect = 1e-70
 Identities = 77/169 (45%), Positives = 110/169 (65%), Gaps = 7/169 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD GVGK+SL+ ++  NKF ++Y  TIG DF TK +++D K V LQIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F++L   +YRGA   +LVYD+  + +FE+++ W EE L+ AD    E  P VL+GNK D 
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHAD----ENVPIVLVGNKCDL 116

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
                RVV  ++     A    +P+ ETSAK + N++EAF  +A   LK
Sbjct: 117 --EDQRVVSTEEGEAL-AKELGLPFMETSAKTNENVEEAFEELAREILK 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|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  199 bits (508), Expect = 1e-65
 Identities = 90/162 (55%), Positives = 118/162 (72%), Gaps = 3/162 (1%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           LLKVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VTLQIWDTAGQ
Sbjct: 5   LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LGNKI
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D      R V  ++A  WC   G+ PYFETSAK+  N+  AF
Sbjct: 125 DI---PERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

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|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  169 bits (431), Expect = 5e-54
 Identities = 69/165 (41%), Positives = 104/165 (63%), Gaps = 7/165 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV++LG+  VGKTSL+ +YV NKF++++++T  A F  K + +  K + L IWDTAGQER
Sbjct: 2   KVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQER 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + +LG  +YR AD  +LVYD+    +F+ ++ W +E LKQ     +     V++GNKID 
Sbjct: 62  YHALGPIYYRDADGAILVYDITDADSFQKVKKWIKE-LKQM--RGNNISL-VIVGNKIDL 117

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +    RVV + +A E+    G   +FETSAK    I+E FL +A+
Sbjct: 118 E--RQRVVSKSEAEEYAKSVG-AKHFETSAKTGKGIEELFLSLAK 159

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

 Score =  166 bits (423), Expect = 9e-53
 Identities = 65/162 (40%), Positives = 106/162 (65%), Gaps = 7/162 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK++L++++  N+F+   K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 3   LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+  + TFE+++ W +E    AD         +L+GNK 
Sbjct: 63  ERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADS----NIVIMLVGNKS 118

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D      R VP ++A  +   +  + + ETSA +  N++EAF
Sbjct: 119 DL--RHLRAVPTEEAKAFAE-KNGLSFIETSALDGTNVEEAF 157

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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  163 bits (415), Expect = 1e-51
 Identities = 64/167 (38%), Positives = 99/167 (59%), Gaps = 9/167 (5%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++ LGD  VGKTS++ +++Y+ F  QY+ATIG DF++K + +DDK V LQ+WDTAGQER
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQER 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKID 132
           F+SL  ++ R +   V+VYD+  +++F++   W ++        E       VL+GNK D
Sbjct: 62  FRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDV-----RDERGNDVIIVLVGNKTD 116

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
                 R V  ++  E  A   N  + ETSAK   N+ + F  +A+ 
Sbjct: 117 LS--DKRQVSTEEG-EKKAKENNAMFIETSAKAGHNVKQLFKKIAQA 160

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  163 bits (414), Expect = 1e-51
 Identities = 67/170 (39%), Positives = 104/170 (61%), Gaps = 10/170 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK++++GDSGVGK+SL+ ++  + F +   +TIG DF  K + +D K V L IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L S++YRGA   +LVYDV  + TF++L  W  E    +    +     +L+GNKID
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYST---NPDAVKMLVGNKID 117

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
                +R V +++  ++ A + N+ + ETSAK    + +AF    E+  K
Sbjct: 118 K---ENREVTREEGQKF-ARKHNMLFIETSAKTRIGVQQAF---EELVEK 160

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

 Score =  164 bits (416), Expect = 3e-51
 Identities = 74/201 (36%), Positives = 109/201 (54%), Gaps = 4/201 (1%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQ 71
            KV+V+GD GVGKTS++ +YV+  FSQ YKATIG DF  K ++ D   +V LQ+WD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF  +   +Y+GA   ++V+DV    TFE++  W+ +   +      E  P +LL NK 
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D           ++  ++C   G I +FETSAKE+ NI+EA   + +  LKN+      +
Sbjct: 121 DLKKERLA-KDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGLQSPE 179

Query: 192 PQGISETV--SEVEQRGGCAC 210
           P   +      E       +C
Sbjct: 180 PDEDNVIDLKQETTTSKSKSC 200

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

 Score =  159 bits (404), Expect = 6e-50
 Identities = 66/170 (38%), Positives = 107/170 (62%), Gaps = 15/170 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + F+  + +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 3   LFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +++YRGA   +LVYD+  +K+FE+++NW     + A          +L+GNK 
Sbjct: 63  ERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVER----MLVGNKC 118

Query: 132 DTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D +    RVV     +  A E+      I + ETSAK + N++EAFL +A
Sbjct: 119 DME--EKRVVSKEEGEALAREY-----GIKFLETSAKANINVEEAFLTLA 161

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

 Score =  154 bits (391), Expect = 6e-48
 Identities = 67/166 (40%), Positives = 110/166 (66%), Gaps = 7/166 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K V LQIWDTAGQ
Sbjct: 2   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQ 61

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W +E  + A    ++    +L+GNK 
Sbjct: 62  ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNK----LLVGNKC 117

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D      +VV   +A E+ A    IP+ ETSAK   N++EAF+ +A
Sbjct: 118 DLT--DKKVVDYTEAKEF-ADELGIPFLETSAKNATNVEEAFMTMA 160

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

 Score =  150 bits (382), Expect = 1e-46
 Identities = 65/165 (39%), Positives = 104/165 (63%), Gaps = 7/165 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LGDS VGK+S++ ++V N+FS+  ++TIGA F+T+ + +DD  V  +IWDTAGQER
Sbjct: 3   KLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQER 62

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           ++SL   +YRGA   ++VYD+  +++FE  ++W +E  +   P         L GNK D 
Sbjct: 63  YRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPN----IVIALAGNKADL 118

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +  S R V  ++A E+    G + + ETSAK   N++E F  +A 
Sbjct: 119 E--SKRQVSTEEAQEYADENGLL-FMETSAKTGENVNELFTEIAR 160

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

 Score =  138 bits (351), Expect = 6e-42
 Identities = 60/160 (37%), Positives = 92/160 (57%), Gaps = 7/160 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  ++V  +F ++Y  TI  D   K++ +D +  TL I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + R  D  +LVY +  +++FE ++N RE+ L+  D  +    P VL+GNK D 
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDV---PIVLVGNKCDL 116

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    R V  ++     A     P+ ETSAK + NIDE F
Sbjct: 117 EN--ERQVSTEEGEAL-AEEWGCPFLETSAKTNINIDELF 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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  138 bits (349), Expect = 1e-41
 Identities = 63/172 (36%), Positives = 99/172 (57%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D K + LQIWDTAGQ
Sbjct: 4   LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ 63

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E F+S+  ++YRGA   +LVYD+  ++TF  L +W E+  + ++         +L+GNK 
Sbjct: 64  ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNS----NMTIMLIGNKC 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  S R V   +  E  A    + + ETSAK   N++EAF+  A+     
Sbjct: 120 DLE--SRREV-SYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYDK 168

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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  136 bits (343), Expect = 9e-41
 Identities = 66/166 (39%), Positives = 100/166 (60%), Gaps = 6/166 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K+I++GDS VGKT ++ ++    FS++   TIG DF  K L++  K V LQIWDTAGQ
Sbjct: 3   LFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YR A+  ++ YD+  + +FES+ +W EE  K            +L+GNK 
Sbjct: 63  ERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASN----VVLLLIGNKC 118

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D +    R V  ++A     + G +   ETSAKE  N++EAFL +A
Sbjct: 119 DLE--EQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMA 162

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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  133 bits (337), Expect = 7e-40
 Identities = 64/168 (38%), Positives = 98/168 (58%), Gaps = 8/168 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K +++G +G GK+ L++Q++ NKF Q    TIG +F ++ + +  K V LQIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+  ++YRGA   +LVYD+  +++F +L NW  +    A P        +L+GNK D
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPD----IVIILVGNKKD 116

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEI 179
            +    R V   +A  + A    + + ETSA    N++EAFL C   I
Sbjct: 117 LE--DDREVTFLEASRF-AQENGLLFLETSALTGENVEEAFLKCARSI 161

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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  132 bits (333), Expect = 7e-39
 Identities = 73/203 (35%), Positives = 119/203 (58%), Gaps = 11/203 (5%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +L K++++GDSGVGK+SL+ ++  N FS  Y  TIG DF  + ++++ + V LQIWDTAG
Sbjct: 5   HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAG 64

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ S +YRG    ++VYDV   ++F +++ W +E  +  D         VL+GNK
Sbjct: 65  QERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCK-----VLVGNK 119

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYY 190
              D    +VV  + A ++   +  I  FETSAKE+ N++E F C+ E+ L+ +  ++  
Sbjct: 120 --NDDPERKVVETEDAYKFAG-QMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAK 176

Query: 191 QPQGISETVSEV---EQRGGCAC 210
           Q Q     V ++    +R    C
Sbjct: 177 QQQQQQNDVVKLPKNSKRKKRCC 199

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

 Score =  132 bits (333), Expect = 1e-38
 Identities = 62/189 (32%), Positives = 92/189 (48%), Gaps = 19/189 (10%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++VLGD GVGKT+L+N+ V ++F + Y  TIG     K ++   + + LQ+WDTAGQE
Sbjct: 6   FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65

Query: 73  RFQSLGSAFYRGADCCVLVYDV-NVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
            ++SL   +YRGA+  ++VYD    + + E  + W EE  + A     +  P +L+GNKI
Sbjct: 66  EYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAP----DDVPILLVGNKI 121

Query: 132 DTDGGSSRVVPQKKALEWCAY------------RGNIPYFETSAK--EDCNIDEAFLCVA 177
           D     S        L                   N    ETSAK     N++E F  + 
Sbjct: 122 DLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELL 181

Query: 178 EIALKNEHK 186
              L+   K
Sbjct: 182 RKLLEEIEK 190

Length = 219

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

 Score =  131 bits (332), Expect = 1e-38
 Identities = 63/162 (38%), Positives = 105/162 (64%), Gaps = 7/162 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+++++++  N+F  + K+TIG +F T+ LQ++ K V  QIWDTAGQ
Sbjct: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ 71

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+  ++TF+++Q W  E    AD         ++ GNK 
Sbjct: 72  ERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSN----IVIMMAGNKS 127

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    R V ++   +  A +  + + ETSA E  N+++AF
Sbjct: 128 DLN--HLRSVAEEDG-QALAEKEGLSFLETSALEATNVEKAF 166

Length = 216

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

 Score =  128 bits (324), Expect = 9e-38
 Identities = 67/174 (38%), Positives = 102/174 (58%), Gaps = 11/174 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+IV+GDS VGKT L  ++   +F ++ +ATIG DF  + +++D + + +Q+WDTAGQER
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQER 63

Query: 74  F-QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           F +S+   +YR     V VYDV    +F SL +W EE  + + P E    P +L+GNK D
Sbjct: 64  FRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNE---VPRILVGNKCD 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAK---EDCNIDEAFLCVAEIALKN 183
                   VP   A  + A   ++P FETSAK   E+ +++  F+ +A   LK+
Sbjct: 121 L--REQIQVPTDLAQRF-ADAHSMPLFETSAKDPSENDHVEAIFMTLAH-KLKS 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|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  126 bits (319), Expect = 3e-37
 Identities = 65/168 (38%), Positives = 105/168 (62%), Gaps = 10/168 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD--DKLVTLQIWDTAG 70
           +KVIV+G+  VGK+S++ ++V   F++ YK TIG DF+ K++ +   D+ V L +WDTAG
Sbjct: 1   IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAG 60

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QE F ++  A+YRGA  C+LV+    +++FE++++W+E+   +A+ G+    P VL+  K
Sbjct: 61  QEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKV--EAECGD---IPMVLVQTK 115

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           ID      + V   +  E  A R  +P F TS K+D N+ E F  +AE
Sbjct: 116 IDL---LDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAE 160

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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  127 bits (320), Expect = 5e-37
 Identities = 68/176 (38%), Positives = 107/176 (60%), Gaps = 6/176 (3%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L+VI++G  GVGKTSLM ++  + F +  K+T+G DF  K +++  K + LQIWDTAGQE
Sbjct: 1   LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF S+ SA+YR A   +LVYD+  ++TF+ L  W    +K  D    E    +L+GNK+D
Sbjct: 61  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKW----MKMIDKYASEDAELLLVGNKLD 116

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDI 188
            +  + R + +++  ++      + + E SAK++ N+DE FL + +  LK    DI
Sbjct: 117 CE--TDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDI 170

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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  125 bits (316), Expect = 1e-36
 Identities = 59/172 (34%), Positives = 100/172 (58%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K I++GD GVGK+ L++Q+   KF      TIG +F T+ ++++ + + LQIWDTAGQ
Sbjct: 2   IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQ 61

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YRGA   ++VYD+  + T+  L +W  +     +P         L+GNK 
Sbjct: 62  ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN----TVIFLIGNKA 117

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +    R V  ++A ++ A    + + E SAK   N+++AFL  A+   +N
Sbjct: 118 DLEA--QRDVTYEEAKQF-ADENGLLFLECSAKTGENVEDAFLETAKKIYQN 166

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

 Score =  125 bits (315), Expect = 2e-36
 Identities = 68/184 (36%), Positives = 108/184 (58%), Gaps = 22/184 (11%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL----------V 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  + +           V
Sbjct: 4   LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRV 63

Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAGQERF+SL +AF+R A   +L++D+  +++F +++NW  + L+      H  
Sbjct: 64  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQ-LQA-----HAY 117

Query: 122 CP---FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           C     VL+GNK D      R V +++A E     G IPYFETSA    N+++A   + +
Sbjct: 118 CENPDIVLIGNKADLP--DQREVSERQARELADKYG-IPYFETSAATGQNVEKAVETLLD 174

Query: 179 IALK 182
           + +K
Sbjct: 175 LIMK 178

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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  124 bits (313), Expect = 3e-36
 Identities = 63/166 (37%), Positives = 102/166 (61%), Gaps = 7/166 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G++GVGKT L+ ++    F     ATIG DF+ K +++  + + LQIWDTAGQ
Sbjct: 7   LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQ 66

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YR A+  +L YD+  +++F  L  W  E  + A+         +L+GNKI
Sbjct: 67  ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYAN----NKVITILVGNKI 122

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D      R V Q++A E+ +   ++ Y ETSAKE  N+++ FL +A
Sbjct: 123 DL--AERREVSQQRAEEF-SDAQDMYYLETSAKESDNVEKLFLDLA 165

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|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  124 bits (313), Expect = 7e-36
 Identities = 75/199 (37%), Positives = 111/199 (55%), Gaps = 12/199 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           KV+++GDSGVGKT L+ ++    F +  + AT+G  F  K + +D   V LQIWDTAGQE
Sbjct: 2   KVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQE 61

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+  A+YR A   +L+YDV  + +F++++ W  E L+ A          +LLGNK D
Sbjct: 62  RFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYA----QSDVVIMLLGNKAD 117

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP 192
             G   RVV ++   E  A    +P+ ETSAK   N++ AF  VA+  LK  H+ +    
Sbjct: 118 MSG--ERVVKREDG-ERLAKEYGVPFMETSAKTGLNVELAFTAVAK-ELK--HRSVEQPD 171

Query: 193 QGISETVSEVE-QRGGCAC 210
           +   +    VE Q+    C
Sbjct: 172 EPKFKIQDYVEKQKKSSGC 190

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|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  122 bits (309), Expect = 5e-35
 Identities = 57/166 (34%), Positives = 103/166 (62%), Gaps = 7/166 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQE 72
           ++IV+GDS VGK+SL+ ++   +F++    T+G DF ++ ++++    + LQ+WDTAGQE
Sbjct: 4   RLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE 63

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+  ++YR +   +LV+D+  +++FE + +W EE      P       F+L+G+K D
Sbjct: 64  RFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQP---HRPVFILVGHKCD 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
            +  S R V +++A +     G + Y ETSA+   N++EAF  + +
Sbjct: 121 LE--SQRQVTREEAEKLAKDLG-MKYIETSARTGDNVEEAFELLTQ 163

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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  119 bits (300), Expect = 3e-34
 Identities = 64/167 (38%), Positives = 98/167 (58%), Gaps = 8/167 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q++   F   Y  TI  D   K++++D ++  L I DTAGQE 
Sbjct: 2   KLVVLGSGGVGKSALTIQFIQGHFVDDYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEE 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + R  +  +LVY +  +++FE ++ +RE+ L+  D    +  P VL+GNK D 
Sbjct: 61  FSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKD---RDDVPIVLVGNKCDL 117

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF-LCVAEI 179
           +  S RVV  ++  E  A +   P+ ETSAKE  N+DEAF   V EI
Sbjct: 118 E--SERVVSTEEGKE-LARQWGCPFLETSAKERVNVDEAFYDLVREI 161

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

 Score =  118 bits (298), Expect = 4e-34
 Identities = 57/162 (35%), Positives = 99/162 (61%), Gaps = 7/162 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +  +DK + LQIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W      Q      +    +L+GNK 
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDW----STQIKTYSWDNAQVILVGNKC 116

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    RVV  ++  +     G   +FE SAKE+ N+ + F
Sbjct: 117 DME--DERVVSAERGRQLADQLG-FEFFEASAKENINVKQVF 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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  120 bits (302), Expect = 5e-34
 Identities = 74/216 (34%), Positives = 110/216 (50%), Gaps = 21/216 (9%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M    L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D+K + LQIW
Sbjct: 1   MSYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIW 60

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAGQE F+S+  ++YRGA   +LVYD+  ++TF  L +W E+  + A+         +L
Sbjct: 61  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANAN----MTIML 116

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK---- 182
           +GNK D      R V  ++  ++    G I + E SAK   N++EAF+  A    K    
Sbjct: 117 IGNKCDL--AHRRAVSTEEGEQFAKEHGLI-FMEASAKTAQNVEEAFIKTAAKIYKKIQD 173

Query: 183 ------NEHKDI---YYQPQGISETV-SEVEQRGGC 208
                 NE   I   Y    G S        Q GGC
Sbjct: 174 GVFDVSNESYGIKVGYGAIPGASGGRDGTSSQGGGC 209

Length = 210

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

 Score =  118 bits (297), Expect = 1e-33
 Identities = 64/167 (38%), Positives = 98/167 (58%), Gaps = 8/167 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F  +Y  TI  D   K++++D ++  L I DTAGQE 
Sbjct: 4   KLVVLGGGGVGKSALTIQFVQGHFVDEYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEE 62

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + R  +  +LVY +  +++FE +  +RE+ L+  D    +  P VL+GNK D 
Sbjct: 63  FSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKD---RDDVPIVLVGNKCDL 119

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF-LCVAEI 179
           +  + RVV  ++  E  A +   P+ ETSAKE  N+DEAF   V EI
Sbjct: 120 E--NERVVSTEEGKE-LARQWGCPFLETSAKERINVDEAFYDLVREI 163

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

 Score =  118 bits (297), Expect = 1e-33
 Identities = 52/162 (32%), Positives = 87/162 (53%), Gaps = 4/162 (2%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +KVI +G+SGVGK+ ++ +Y   +F  +Y  TIG D+  K++ + +K V +  +D +G  
Sbjct: 1   IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHP 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQ-ADPGEHEACPFVLLGNKI 131
            +  + + FY+     +LVYDV  +++FE+L +W +E  ++    G  E    V+  NKI
Sbjct: 61  EYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKI 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D      R V + +   W A      YFETSA     ++E F
Sbjct: 121 DL--TKHRAVSEDEGRLW-AESKGFKYFETSACTGEGVNEMF 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|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score =  116 bits (292), Expect = 3e-33
 Identities = 53/165 (32%), Positives = 73/165 (44%), Gaps = 18/165 (10%)

Query: 17  VLGDSGVGKTSLMNQYVYNKF---SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           V+G  GVGK+SL+N  +  +    S     T   D   KE  +D   V L + DT G + 
Sbjct: 2   VVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKE--LDKGKVKLVLVDTPGLDE 59

Query: 74  FQSLGSA-----FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           F  LG         RGAD  +LV D   +++ E  +      L++         P +L+G
Sbjct: 60  FGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGI------PIILVG 113

Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           NKID      R V +   LE  A    +P FE SAK    +DE F
Sbjct: 114 NKIDLL--EEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELF 156

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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  116 bits (291), Expect = 5e-33
 Identities = 59/171 (34%), Positives = 100/171 (58%), Gaps = 7/171 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            +++++GDSGVGKT L+ ++  N+F   + +TIG DF  K +++D   V +QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+Q++   +YR A    LVYD++ +++++ +  W  +  + A     E    +L+GNK  
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAP----EGVQKILIGNK-- 114

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            D    R V  ++  +     G + +FETSA  + NI E+F  + E+ L+ 
Sbjct: 115 ADEEQKRQVGDEQGNKLAKEYG-MDFFETSACTNKNIKESFTRLTELVLQA 164

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

 Score =  113 bits (285), Expect = 4e-32
 Identities = 57/161 (35%), Positives = 91/161 (56%), Gaps = 7/161 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+G  GVGK++L  Q++ + F   Y  TI  D  TK+ ++D +   L I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTI-EDSYTKQCEIDGQWARLDILDTAGQE 61

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            F ++   + R  +  +LV+ V  + +FE +  +  + L+  D  E    P +L+GNK D
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEF---PMILVGNKAD 118

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            +    R V +++  E  A +  IPY ETSAK+  N+D+AF
Sbjct: 119 LE--HQRQVSREEGQEL-ARQLKIPYIETSAKDRVNVDKAF 156

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|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  113 bits (284), Expect = 1e-31
 Identities = 64/169 (37%), Positives = 96/169 (56%), Gaps = 9/169 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           +KV++LG   VGKTSL+ +YV+++F    Y+ TIGA FV K + + +++VTL IWDTAG 
Sbjct: 1   VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS 60

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++   +YRGA   ++ YD+    +FE  + W +E L+  +      C   L G K 
Sbjct: 61  ERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKE-LQNLEEH----CKIYLCGTKS 115

Query: 132 D--TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D      S R V      ++ A      +FETS+K   N+DE F  VAE
Sbjct: 116 DLIEQDRSLRQVDFHDVQDF-ADEIKAQHFETSSKTGQNVDELFQKVAE 163

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

 Score =  112 bits (281), Expect = 2e-31
 Identities = 59/169 (34%), Positives = 94/169 (55%), Gaps = 4/169 (2%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVIV+GD  VGKT L+N++  + F + YKATIG DF  +  ++     +LQ+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F+ + S +YRGA   ++V+D+    + E  + W E+ LK+ DP    +    L+G K D 
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPS---SVLLFLVGTKKDL 118

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              +   + ++ A++  A      Y+  SA    N+ + F  VA +  +
Sbjct: 119 SSPAQYALMEQDAIK-LAREMKAEYWAVSALTGENVRDFFFRVASLTFE 166

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  111 bits (279), Expect = 4e-31
 Identities = 56/160 (35%), Positives = 90/160 (56%), Gaps = 6/160 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V N F + Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 3   KIVVLGAGGVGKSALTVQFVQNVFIESYDPTI-EDSYRKQVEIDGRQCDLEILDTAGTEQ 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +     +LVY V  + +   L   RE+ L+  D    +  P VL+GNK D 
Sbjct: 62  FTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKD---SDNVPMVLVGNKADL 118

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    R V ++  +      GN+P++ETSA++  N+DE F
Sbjct: 119 E--DDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVF 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|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  110 bits (277), Expect = 7e-31
 Identities = 55/163 (33%), Positives = 90/163 (55%), Gaps = 11/163 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV+VLG  GVGK++L  Q+V   F ++Y  TI  DF  KE+++D     L+I DTAG E+
Sbjct: 3   KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQ 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F S+   + +     ++VY +  Q+TF+ ++  R++ ++      +E  P +L+GNK+D 
Sbjct: 62  FASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVK---GYEKVPIILVGNKVDL 118

Query: 134 DGGSSRVVPQKKAL--EWCAYRGNIPYFETSAKEDCNIDEAFL 174
           +        + +AL  EW       P+ ETSAK    ++E F 
Sbjct: 119 ESEREVSSAEGRALAEEWGC-----PFMETSAKSKTMVNELFA 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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  111 bits (278), Expect = 2e-30
 Identities = 64/171 (37%), Positives = 103/171 (60%), Gaps = 11/171 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GDSGVGK+SL+  ++ +   +    TIG DF  K+L +  K + L IWDTAGQE
Sbjct: 15  FKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQE 73

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
           RF++L S++YR A   +LVYDV  ++TF +L + W +E    +    ++ C  +L+GNK+
Sbjct: 74  RFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYS---TNQDCVKMLVGNKV 130

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           D +  S R V +++ +   A      + E SAK   N+++   C  E+ALK
Sbjct: 131 DRE--SERDVSREEGMA-LAKEHGCLFLECSAKTRENVEQ---CFEELALK 175

Length = 211

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

 Score =  108 bits (272), Expect = 4e-30
 Identities = 59/160 (36%), Positives = 90/160 (56%), Gaps = 6/160 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F  +Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVDKYDPTI-EDSYRKQIEVDCQQCMLEILDTAGTEQ 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q++F  LQ+ RE+ L+  D    E  P +L+GNK D 
Sbjct: 62  FTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKD---TEDVPMILVGNKCDL 118

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV +++        GN P+ ETSAK   N+DE F
Sbjct: 119 E--DERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIF 156

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

 Score =  108 bits (270), Expect = 7e-30
 Identities = 52/161 (32%), Positives = 90/161 (55%), Gaps = 11/161 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K+I+LGDS VGK+ L+ +++ + +  Q  +T          + + K + +  WDTAGQE
Sbjct: 1   VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RFQ++ +++Y  A  C+LV+DV  + T+++L  W EE L++  P      P +++ NKID
Sbjct: 61  RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEE-LREYRP----EIPCIVVANKID 115

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            D     V  +K      A + N+P +  SA +  N+ + F
Sbjct: 116 LD---PSVTQKKFNF---AEKHNLPLYYVSAADGTNVVKLF 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|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score =  105 bits (265), Expect = 5e-29
 Identities = 54/175 (30%), Positives = 93/175 (53%), Gaps = 20/175 (11%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGA-----DFVTKELQMDDKLVTLQIWDT 68
           K++++GD G GKT+ + +++  +F ++Y AT+G      DF T   +     +   +WDT
Sbjct: 2   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGK-----IRFNVWDT 56

Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQE+F  L   +Y    C ++++DV  + T++++ NW  + ++       E  P VL G
Sbjct: 57  AGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCG 111

Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           NK+D      R V  K+       + N+ Y+E SAK + N ++ FL +A   L N
Sbjct: 112 NKVDI---KDRKVKPKQIT--FHRKKNLQYYEISAKSNYNFEKPFLWLARKLLGN 161

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

 Score =  105 bits (263), Expect = 8e-29
 Identities = 55/161 (34%), Positives = 89/161 (55%), Gaps = 8/161 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            + ++   + R  +  + V+ +N +K+FE +  +RE+  +  D    +  P VL+GNK D
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKD---SDDVPMVLVGNKCD 117

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
               ++R V  ++  +  A    IPY ETSAK    ++EAF
Sbjct: 118 L---AARTVSTRQGQD-LAKSYGIPYIETSAKTRQGVEEAF 154

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|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  105 bits (264), Expect = 2e-28
 Identities = 58/172 (33%), Positives = 88/172 (51%), Gaps = 10/172 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL-VTLQIWDTAGQ 71
           +K++VLGD   GKTSL+ ++    F + YK TIG DF ++ + +   L VTLQ+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL-GNK 130
           +    +   +  GA    LVYD+   ++FE+L++W     K  +  E +  P ++L GNK
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETK--PKMVLVGNK 118

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
            D +   +R V  +K   +         F  SAK     D  FLC   IA +
Sbjct: 119 TDLE--HNRQVTAEKHARFAQENDMESIF-VSAKTG---DRVFLCFQRIAAE 164

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|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score =  104 bits (262), Expect = 5e-28
 Identities = 61/191 (31%), Positives = 96/191 (50%), Gaps = 39/191 (20%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV++LGD  VGKTSL+++Y+  +F +   +T+G  F  K+         + IWDTAG+E
Sbjct: 1   LKVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAFYLKQW----GPYNISIWDTAGRE 55

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  LGS + RGA   +L YDV+  ++ E L+   + FL   D    + C F ++GNK+D
Sbjct: 56  QFHGLGSMYCRGAAAVILTYDVSNVQSLEELE---DRFLGLTDTANED-CLFAVVGNKLD 111

Query: 133 -TDGGSS-----------------RVVPQ------KKALEWCAYRGNI------PYFETS 162
            T+ G+                  +V  +      K+  ++     ++        FETS
Sbjct: 112 LTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETS 171

Query: 163 AKEDCNIDEAF 173
           AK   N+DE F
Sbjct: 172 AKTGYNVDELF 182

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

 Score =  102 bits (256), Expect = 2e-27
 Identities = 53/177 (29%), Positives = 83/177 (46%), Gaps = 16/177 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K++V+GD  VGKT L+  Y  NKF  +Y  T+  D  +  + +D K V L +WDTAGQE
Sbjct: 1   IKIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQE 59

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  +L + V+   +FE+++  W  E +K   P      P +L+G KI
Sbjct: 60  EYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPE-IKHYCPN----VPIILVGTKI 114

Query: 132 DT-DGGSSRV--------VPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
           D  D G++          +  ++  +     G + Y E SA     + E F      
Sbjct: 115 DLRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIRA 171

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 =  101 bits (254), Expect = 2e-27
 Identities = 53/161 (32%), Positives = 92/161 (57%), Gaps = 7/161 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V L I DTAGQE 
Sbjct: 2   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTK-ADSYRKKVVLDGEEVQLNILDTAGQED 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   ++R  +  +LV+ +   ++F +L  +RE+ L+  +    +  P +L+GNK D 
Sbjct: 61  YAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKE---DDNVPLLLVGNKCDL 117

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           +      V +   L   A +  + Y ETSAK   N+D+ F 
Sbjct: 118 EDKRQVSVEEAANL---AEQWGVNYVETSAKTRANVDKVFF 155

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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 99.4 bits (248), Expect = 2e-26
 Identities = 48/163 (29%), Positives = 80/163 (49%), Gaps = 11/163 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           K++++GD  VGK++L+N+ + NK S  +YK     ++VT  ++ D K     + DTAGQE
Sbjct: 3   KIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQE 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVN--VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
            + ++   +YR  +  + V+D+   V    E L+   +E +  A+ G     P +L+GNK
Sbjct: 63  DYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESG----VPIILVGNK 118

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           ID      +        +        P    SA+   NID AF
Sbjct: 119 IDLRDAKLKTHVAFLFAKL----NGEPIIPLSAETGKNIDSAF 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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 99.6 bits (248), Expect = 3e-26
 Identities = 58/160 (36%), Positives = 90/160 (56%), Gaps = 7/160 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q++ N F  +Y  TI  D   K+  +D++   L I DTAGQE 
Sbjct: 7   KLVVVGGGGVGKSALTIQFIQNHFIDEYDPTI-EDSYRKQCVIDEETCLLDILDTAGQEE 65

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R     + VY +  + +FE + ++RE+ L+  D    +  P +L+GNK D 
Sbjct: 66  YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKD---KDRVPMILVGNKCDL 122

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D  S R V   +  E  A    IP+ ETSAK+  N+DEAF
Sbjct: 123 D--SERQVSTGEGQE-LAKSFGIPFLETSAKQRVNVDEAF 159

Length = 189

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

 Score = 98.1 bits (245), Expect = 6e-26
 Identities = 53/179 (29%), Positives = 82/179 (45%), Gaps = 17/179 (9%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           ++V+GD  VGKT L+  Y  N F + Y  T+  ++    +++D K V L +WDTAGQE +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSAD-VEVDGKPVELGLWDTAGQEDY 59

Query: 75  QSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKIDT 133
             L    Y   D  ++ + V+   +FE+++  W  E +K   P      P +L+G K+D 
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPE-VKHFCPN----VPIILVGTKLDL 114

Query: 134 -DGGSSRVVPQKKALEWCAYR---------GNIPYFETSAKEDCNIDEAFLCVAEIALK 182
            +  S+     KK  E   Y          G + Y E SA     + E F      AL 
Sbjct: 115 RNDKSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEEAIRAALN 173

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

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

 Score = 98.0 bits (244), Expect = 1e-25
 Identities = 54/163 (33%), Positives = 87/163 (53%), Gaps = 5/163 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLGD GVGKT+L  Q   N F + Y  TI  D   K++ +D +   L++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTI-EDSYRKQVVVDGQPCMLEVLDTAGQEE 59

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + +L   + R  +  +LVY +  + TFE ++ +RE+  +  D    +  P +++GNK   
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADV-PIMIVGNK--C 116

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           D    R V  ++     A R    + E SAK + N++ AF  +
Sbjct: 117 DKVYEREVSTEEGAA-LARRLGCEFIEASAKTNVNVERAFYTL 158

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

 Score = 98.2 bits (245), Expect = 1e-25
 Identities = 50/165 (30%), Positives = 93/165 (56%), Gaps = 12/165 (7%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+I++GD GVGKT+ + +++  +F ++Y  T+G +    +   +   +   +WDTAGQE+
Sbjct: 11  KLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEK 70

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F  L   +Y    C ++++DV  + T++++ NW  + ++  +       P VL+GNK+D 
Sbjct: 71  FGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCEN-----IPIVLVGNKVDV 125

Query: 134 DGGSSRVVPQKKALEWCAYRG-NIPYFETSAKEDCNIDEAFLCVA 177
                R V   KA +   +R  N+ Y++ SAK + N ++ FL +A
Sbjct: 126 ---KDRQV---KARQITFHRKKNLQYYDISAKSNYNFEKPFLWLA 164

Length = 215

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

 Score = 94.9 bits (236), Expect = 9e-25
 Identities = 59/164 (35%), Positives = 91/164 (55%), Gaps = 15/164 (9%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F ++Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTI-EDSYRKQVEVDGQQCMLEILDTAGTEQ 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +     VLVY +  Q TF  LQ+ RE+ L+  D    E  P +L+GNK D 
Sbjct: 62  FTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDL 118

Query: 134 DGGSSRVVPQKK----ALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV +++    A +W        + ETSAK   N++E F
Sbjct: 119 E--DERVVGKEQGQNLARQWGCA-----FLETSAKAKINVNEIF 155

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

 Score = 94.9 bits (236), Expect = 2e-24
 Identities = 50/160 (31%), Positives = 89/160 (55%), Gaps = 6/160 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +++ +G +GVGKT+L+ +++Y+ F  +++ T+  +  +KE ++    VT+ I DT+G   
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTV-EELHSKEYEVAGVKVTIDILDTSGSYS 59

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++     +  D   LVY V+  ++FE ++  REE L+     E +  P V++GNKID+
Sbjct: 60  FPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVK---EDKFVPIVVVGNKIDS 116

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
              + R V    AL       N  + E SAK++ N+ E F
Sbjct: 117 --LAERQVEAADALSTVELDWNNGFVEASAKDNENVTEVF 154

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

 Score = 93.7 bits (233), Expect = 3e-24
 Identities = 52/169 (30%), Positives = 79/169 (46%), Gaps = 10/169 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYN--KFSQQYKATIGADFVTKELQMDD--KLVTLQIWDT 68
            +  V+GD  VGK++L+  +  +   F + Y  T G D V K + + D    V L I+D+
Sbjct: 1   AQCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDS 60

Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQE F  +    +       +VYDV  + +F +   W    ++    G H   P VL+G
Sbjct: 61  AGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINR-VRTHSHGLH--TPGVLVG 117

Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           NK   D    R V   +A    A    + ++ETSAKE    +  FL +A
Sbjct: 118 NK--CDLTDRREVDAAQAQAL-AQANTLKFYETSAKEGVGYEAPFLSLA 163

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

 Score = 93.8 bits (233), Expect = 4e-24
 Identities = 59/187 (31%), Positives = 96/187 (51%), Gaps = 8/187 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           LLK +++GDS VGK  ++           Y   +G D+ T  + +D + V LQ+WDT+GQ
Sbjct: 6   LLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQ 65

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
            RF ++  ++ RGA   +LVYD+  + +F+ +  W +E  + A PG     P +L+GN++
Sbjct: 66  GRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PG----VPKILVGNRL 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
                  R V  ++A  + A R  + +FE S   + NI E+F  +A I L    +     
Sbjct: 121 HL--AFKRQVATEQAQAY-AERNGMTFFEVSPLCNFNITESFTELARIVLMRHGRPPQSP 177

Query: 192 PQGISET 198
           PQ  S  
Sbjct: 178 PQNCSRN 184

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

 Score = 91.2 bits (227), Expect = 4e-23
 Identities = 55/189 (29%), Positives = 87/189 (46%), Gaps = 24/189 (12%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQ 71
           +K++V+GD G GKT L+  Y    F ++Y  T+  ++VT  LQ+ + K++ L +WDTAGQ
Sbjct: 4   VKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENYVT-TLQVPNGKIIELALWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEH--EACPFVLLG 128
           E +  L    Y   D  ++ Y V+   + +++++ W  E         H     P VL+G
Sbjct: 63  EDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVN-------HFCPGTPIVLVG 115

Query: 129 NKID-----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            K D              G   V P+ +        G + Y E SAK   N+DE F    
Sbjct: 116 LKTDLRKDKNSVSKLRAQGLEPVTPE-QGESVAKSIGAVAYIECSAKLMENVDEVFDAAI 174

Query: 178 EIALKNEHK 186
            +AL    +
Sbjct: 175 NVALSKSGR 183

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

 Score = 91.7 bits (228), Expect = 5e-23
 Identities = 50/166 (30%), Positives = 90/166 (54%), Gaps = 12/166 (7%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y+ TIG +    +   +   +    WDTAGQE
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE 73

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y    C ++++DV  + T++++  W  +  +       E  P VL GNK+D
Sbjct: 74  KFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC-----ENIPIVLCGNKVD 128

Query: 133 TDGGSSRVVPQKKALEWCAYRG-NIPYFETSAKEDCNIDEAFLCVA 177
                +R   Q KA +   +R  N+ Y+E SAK + N ++ FL +A
Sbjct: 129 V---KNR---QVKAKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLA 168

Length = 219

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

 Score = 90.8 bits (225), Expect = 9e-23
 Identities = 47/160 (29%), Positives = 84/160 (52%), Gaps = 10/160 (6%)

Query: 18  LGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL 77
           +GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE+F  L
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 78  GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS 137
              +Y    C ++++DV  + T++++ NW  + ++       E  P VL GNK+D     
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVDV---K 112

Query: 138 SRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            R V  K        + N+ Y++ SAK + N ++ FL +A
Sbjct: 113 DRKVKAKSIT--FHRKKNLQYYDISAKSNYNFEKPFLWLA 150

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

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

 Score = 89.0 bits (220), Expect = 2e-22
 Identities = 53/145 (36%), Positives = 84/145 (57%), Gaps = 7/145 (4%)

Query: 33  VYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY 92
           +Y+ F   Y++TIG DF++K L +D+  V LQ+WDTAGQERF+SL  ++ R +   ++VY
Sbjct: 1   MYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVY 60

Query: 93  DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY 152
           D+  +++FE+   W ++ L +      +     L+GNK  TD G  R V  ++ ++  A 
Sbjct: 61  DITNRQSFENTTKWIQDILNE----RGKDVIIALVGNK--TDLGDLRKVTYEEGMQK-AQ 113

Query: 153 RGNIPYFETSAKEDCNIDEAFLCVA 177
             N  + ETSAK   NI   F  +A
Sbjct: 114 EYNTMFHETSAKAGHNIKVLFKKIA 138

Length = 176

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

 Score = 88.4 bits (219), Expect = 4e-22
 Identities = 55/178 (30%), Positives = 83/178 (46%), Gaps = 19/178 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV+VLGD   GKTSL+N +    F Q Y+ T+  +++  ++ +D   V L +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYI-HDIFVDGLAVELSLWDTAGQEE 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACP---FVLLGN 129
           F  L S  Y      +L + V+   + E++++ W  E            CP    VL+  
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIR--------HHCPGVKLVLVAL 112

Query: 130 KIDTDGGSSRVVPQKKALEW-----CAYRGN-IPYFETSAKEDCNIDEAFLCVAEIAL 181
           K D     +        + +      A R N   Y E SAK +  ++EAF   A +AL
Sbjct: 113 KCDLREPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEAARVAL 170

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

 Score = 88.1 bits (219), Expect = 6e-22
 Identities = 61/172 (35%), Positives = 89/172 (51%), Gaps = 18/172 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+ VLG   VGK+SL  Q+V   F + Y  TI   F +K +    +   L+I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           +  L   +  G    +LVY V  +K+FE ++   ++ L     G+ E+ P VL+GNK D 
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDML--GK-ESVPIVLVGNKSDL 118

Query: 134 DGGSSRVVP----QKKALEW-CAYRGNIPYFETSAKEDCNIDEAF-LCVAEI 179
                R V     +K A  W  A      + E+SAKE+ N++EAF L + EI
Sbjct: 119 H--MERQVSAEEGKKLAESWGAA------FLESSAKENENVEEAFELLIEEI 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|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 83.7 bits (207), Expect = 2e-20
 Identities = 53/169 (31%), Positives = 80/169 (47%), Gaps = 23/169 (13%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +V+V G  GVGK+SL+ ++V   F + Y  TI  D   + +     + TLQI DT G  +
Sbjct: 3   RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTI-EDTYRQVISCSKSICTLQITDTTGSHQ 61

Query: 74  FQSL-------GSAFYRGADCCVLVYDVNVQKTFESLQNWREEF--LKQADPGEHEACPF 124
           F ++       G AF       +LVY +  +++ E L+   E    +K  +    E  P 
Sbjct: 62  FPAMQRLSISKGHAF-------ILVYSITSKQSLEELKPIYELICEIKGNNL---EKIPI 111

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +L+GNK   D   SR V   +     A   N  + ETSAK + N+ E F
Sbjct: 112 MLVGNK--CDESPSREVSSSEG-AALARTWNCAFMETSAKTNHNVQELF 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|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 82.6 bits (204), Expect = 1e-19
 Identities = 49/172 (28%), Positives = 83/172 (48%), Gaps = 21/172 (12%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKTSL+  +   +F ++Y  T+  ++VT + ++D K V L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVT-DCRVDGKPVQLALWDTAGQEE 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQN----WREEFLKQADPGEHEACPFVLLGN 129
           ++ L    Y  A   ++ + ++   T +SL+N    W EE  +          P +L+G 
Sbjct: 62  YERLRPLSYSKAHVILIGFAID---TPDSLENVRTKWIEEVRRYCPN-----VPVILVGL 113

Query: 130 KID--------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           K D         +  +   VP ++A       G   Y E SA     +D+ F
Sbjct: 114 KKDLRQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF 165

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|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 = 79.5 bits (196), Expect = 8e-19
 Identities = 52/174 (29%), Positives = 86/174 (49%), Gaps = 8/174 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LG  GVGK+++  Q++ + F   +  TI  D    + ++D++   L I DTAGQ  
Sbjct: 4   KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTI-EDAYKTQARIDNEPALLDILDTAGQAE 62

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + R  +  ++ Y V  + +F+    ++E   +       E  P VL+GNK+D 
Sbjct: 63  FTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVR---LTEDIPLVLVGNKVDL 119

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF-LCVAEIALKNEHK 186
           +    R V  ++     A   N P+FETSA     ID+AF   V EI  K    
Sbjct: 120 E--QQRQVTTEEGRN-LAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESMP 170

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

 Score = 79.4 bits (196), Expect = 9e-19
 Identities = 52/171 (30%), Positives = 78/171 (45%), Gaps = 15/171 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK +++GD  VGKTSL+  Y  N +  +Y  T   +F +  + +D K V LQ+ DTAGQ+
Sbjct: 1   LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNF-SVVVLVDGKPVRLQLCDTAGQD 59

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK-- 130
            F  L    Y   D  +L + V V  +  S QN  E+++ +      +A P +L+G +  
Sbjct: 60  EFDKLRPLCYPDTDVFLLCFSV-VNPS--SFQNISEKWIPEIRKHNPKA-PIILVGTQAD 115

Query: 131 --------IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                   I       + V Q +A       G   Y E SA    N+ E F
Sbjct: 116 LRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 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|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 80.9 bits (200), Expect = 1e-18
 Identities = 58/196 (29%), Positives = 97/196 (49%), Gaps = 23/196 (11%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +++VLG S VGKT+++++++  +F +QY  TI  DF  K   +  ++  L I DT+G   
Sbjct: 2   RMVVLGASKVGKTAIVSRFLGGRFEEQYTPTI-EDFHRKLYSIRGEVYQLDILDTSGNHP 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFL--------KQADPGEHEACPFV 125
           F ++        D  +LV+ ++ +++FE +   RE+ L        K  +  +    P V
Sbjct: 61  FPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVK---IPMV 117

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA-LKNE 184
           + GNK D D    R V + +  +      N  YFE SAK++ N+DE F  +  +A L NE
Sbjct: 118 ICGNKADRD--FPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAKLPNE 175

Query: 185 -----HKDI---YYQP 192
                H+ I   Y   
Sbjct: 176 MSPSLHRKISVQYGDA 191

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|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 76.3 bits (188), Expect = 2e-17
 Identities = 39/120 (32%), Positives = 65/120 (54%), Gaps = 5/120 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK+ +LGD+ +GKTSLM +YV  +F ++Y  T+G +F+ K + +    +T  IWD  GQ 
Sbjct: 1   LKIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            F ++     + A   + ++D+  + T  S++ W     +QA      A P  L+G K D
Sbjct: 61  EFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEW----YRQARGFNKTAIPI-LVGTKYD 115

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

 Score = 76.7 bits (189), Expect = 3e-17
 Identities = 53/171 (30%), Positives = 83/171 (48%), Gaps = 7/171 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            +V++LGDSGVGK+SL N +    +        G D   + + +D +  TL ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
               L  +  +  D  V+VY V  + +FE     R   L++A   E    P +L+GNK  
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELR-IQLRRARQAEDI--PIILVGNK-- 115

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLC-VAEIALK 182
           +D   SR V  ++    CA   +  + ETSA    N+DE F   V ++ L+
Sbjct: 116 SDLVRSREVSVQEGRA-CAVVFDCKFIETSAALQHNVDELFEGIVRQVRLR 165

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|219856 pfam08477, Miro, Miro-like protein

 Score = 73.2 bits (180), Expect = 5e-17
 Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 2/118 (1%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV+V+GD G GK+SL++Q V  +F  +     G       L++D     L IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
            +     F + AD  +LVYD+  +++   +       L        +  P +L+GNK+
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAW-LPNLRKLGGKI-PVILVGNKL 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|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 72.2 bits (177), Expect = 5e-16
 Identities = 43/121 (35%), Positives = 66/121 (54%), Gaps = 7/121 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K + +GD  VGKT ++  Y  N F   Y  T+  +F +  + +D   V L +WDTAGQE
Sbjct: 2   IKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    YRGAD  +L + +  + ++E+ L+ W  E L+   PG     P VL+G K+
Sbjct: 61  DYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPE-LRHYAPG----VPIVLVGTKL 115

Query: 132 D 132
           D
Sbjct: 116 D 116

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|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 72.2 bits (177), Expect = 8e-16
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 23/171 (13%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD----- 67
           ++V VLG  GVGKT+++ Q++  +F ++Y  T         + +  ++  L I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 68  ----TAGQE----RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEH 119
               TAGQE    RF+ L     R +   +LVYD+    +F  ++  R++ L+    G  
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 120 EACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG-NIPYFETSAKEDCNI 169
           E  P V++GNK D      R  P +  L     +     Y E SAK + +I
Sbjct: 116 EP-PIVVVGNKRDQQRH--RFAP-RHVLSVLVRKSWKCGYLECSAKYNWHI 162

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

 Score = 71.2 bits (175), Expect = 1e-15
 Identities = 50/168 (29%), Positives = 88/168 (52%), Gaps = 19/168 (11%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+ VLG SGVGK++L  +++  +F  +Y+  + + + ++++ +D + V+L+I DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLY-SRQVTIDGEQVSLEIQDTPGQQQ 59

Query: 74  FQS--LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
            +         R AD  VLVY +  + +F+ +     + +++    + E  P +L+GNK 
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLL-QLIREIKKRDGEI-PVILVGNKA 117

Query: 132 DTDGGSSRVVP----QKKALEW-CAYRGNIPYFETSAKEDCN-IDEAF 173
           D     SR V     QK ALE  C       +FE SA E+   +   F
Sbjct: 118 DLLH--SRQVSTEEGQKLALELGCL------FFEVSAAENYLEVQNVF 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|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 69.0 bits (169), Expect = 8e-15
 Identities = 33/123 (26%), Positives = 66/123 (53%), Gaps = 13/123 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GDS  GKT+L+  +  + F + Y  T+  ++ T   ++D + + L +WDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENY-TASFEVDKQRIELSLWDTSGSPY 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  ++ +D++  +T +S L+ W+ E          E CP    +L+G 
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVR--------EFCPNTPVLLVGC 113

Query: 130 KID 132
           K D
Sbjct: 114 KSD 116

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

 Score = 67.7 bits (166), Expect = 2e-14
 Identities = 47/171 (27%), Positives = 78/171 (45%), Gaps = 17/171 (9%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-----KATIGADFVTKELQMDDKLVTLQI 65
             ++++++GD GVGK+SL+   V  +F +       + TI AD VT E       V   I
Sbjct: 1   KDVRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPAD-VTPE------RVPTTI 53

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            DT+ + + ++  +A  R A+   LVY V+   T E ++      +++         P +
Sbjct: 54  VDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRR----LGVKVPII 109

Query: 126 LLGNKID-TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLC 175
           L+GNK D  DG S   + ++       +R      E SAK   N+ E F  
Sbjct: 110 LVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYY 160

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

 Score = 64.0 bits (156), Expect = 7e-13
 Identities = 45/171 (26%), Positives = 78/171 (45%), Gaps = 17/171 (9%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQED 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++   W  E +K   P      P +L+GNK D
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 116

Query: 133 TDGGSSRV----------VPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                  +          V  ++        G   Y E SAK    + E F
Sbjct: 117 LRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVF 167

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|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 64.5 bits (157), Expect = 2e-12
 Identities = 52/180 (28%), Positives = 79/180 (43%), Gaps = 39/180 (21%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD--------------- 57
           ++V+V+GDSGVGK+SL++  V      +   TIG     K +                  
Sbjct: 22  VRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSER 81

Query: 58  DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPG 117
           D  V L  WD +G ER++   S FY   +  + V+D++ ++T  SLQ W  E    A  G
Sbjct: 82  DFFVEL--WDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV---AATG 136

Query: 118 EHEA-----------CPFVLLGNKID------TDGGSSRVVPQKKALEWCAYRGNIPYFE 160
              A            P++++GNK D      T G S  +V    A +W   +G +P  E
Sbjct: 137 TFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLV--DAARQWVEKQGLLPSSE 194

Length = 334

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

 Score = 62.0 bits (151), Expect = 2e-12
 Identities = 41/162 (25%), Positives = 66/162 (40%), Gaps = 15/162 (9%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQE 72
           K++++G  GVGKTSL  Q +  KF     +T G +    ++   + K + L +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQ--ADPGEHEACPFVLLGNK 130
            + +    F       +LV+D+        +  W    L+Q  A  G     P +L+G  
Sbjct: 63  IYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYW----LRQIKAFGGVS---PVILVGTH 115

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIP-YFETSAKEDCNIDE 171
           ID        + +K   +   +   I      S K    I E
Sbjct: 116 IDES--CDEDILKKALNKK--FPAIINDIHFVSCKNGKGIAE 153

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|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 = 62.1 bits (151), Expect = 3e-12
 Identities = 39/123 (31%), Positives = 61/123 (49%), Gaps = 11/123 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  D  +  + +D K V L +WDTAGQE
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEA--CPFVLLGN 129
            +  L    Y   D  ++ + +    +FE+++  W  E         H     P +L+G 
Sbjct: 61  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-------RHHCPNTPIILVGT 113

Query: 130 KID 132
           K+D
Sbjct: 114 KLD 116

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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 62.0 bits (150), Expect = 4e-12
 Identities = 34/123 (27%), Positives = 67/123 (54%), Gaps = 13/123 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+GDS  GKT+L++ +  + F + Y  T+  ++ T   ++D + + L +WDT+G   
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPY 65

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  ++ +D++  +T +S L+ W+ E          E CP    +L+G 
Sbjct: 66  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEI--------QEFCPNTKMLLVGC 117

Query: 130 KID 132
           K D
Sbjct: 118 KSD 120

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

 Score = 61.8 bits (150), Expect = 4e-12
 Identities = 41/124 (33%), Positives = 66/124 (53%), Gaps = 13/124 (10%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADF-VTKELQMDDKLVTLQIWDTAGQ 71
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++ VT  + +  +  TL ++DTAGQ
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT--VMIGGEPYTLGLFDTAGQ 59

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC---PFVLLG 128
           E +  L    Y   D  ++ + V    +FE   N +E+++    P     C   PF+L+G
Sbjct: 60  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFE---NVKEKWV----PEITHHCPKTPFLLVG 112

Query: 129 NKID 132
            +ID
Sbjct: 113 TQID 116

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

 Score = 61.6 bits (150), Expect = 4e-12
 Identities = 46/162 (28%), Positives = 72/162 (44%), Gaps = 21/162 (12%)

Query: 17  VLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS 76
           ++G    GKT+L+N     +FS+    T+G  F  +++   +  VT+++WD  GQ RF+S
Sbjct: 4   LVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGN--VTIKVWDLGGQPRFRS 59

Query: 77  LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG 136
           +   + RG +  V V D   ++  E     + E     +    E  P ++LGNK D  G 
Sbjct: 60  MWERYCRGVNAIVYVVDAADREKLEVA---KNELHDLLEKPSLEGIPLLVLGNKNDLPGA 116

Query: 137 SSR--VVPQ-----KKALEWCAYRGNIPYFETSAKEDCNIDE 171
            S   ++ Q         E   Y         SAKE  NID 
Sbjct: 117 LSVDELIEQMNLKSITDREVSCY-------SISAKEKTNIDI 151

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

 Score = 61.6 bits (149), Expect = 6e-12
 Identities = 45/173 (26%), Positives = 78/173 (45%), Gaps = 19/173 (10%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F ++Y  T+  D  + +  +D + V+L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTV-FDNYSAQTAVDGRTVSLNLWDTAGQE 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L +  Y   +  ++ + +    ++E++++ W  E      P      P +L+G K 
Sbjct: 63  EYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PN----VPILLVGTKK 117

Query: 132 DTDG-----------GSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D              G + + PQ+           + Y E SA     + E F
Sbjct: 118 DLRNDADTLKKLKEQGQAPITPQQGG-ALAKQIHAVKYLECSALNQDGVKEVF 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|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 60.3 bits (146), Expect = 2e-11
 Identities = 38/146 (26%), Positives = 65/146 (44%), Gaps = 28/146 (19%)

Query: 13  LKVIVLGDSGVGKTSLM-----NQYVYNKFSQQYKATIGADFVT-KELQMDDKLVTLQIW 66
           +KV+VLGDSGVGK+SL+     NQ + N  S     ++     T  E   ++K   +++W
Sbjct: 1   VKVLVLGDSGVGKSSLVHLLCKNQVLGNP-SWTVGCSVDVRHHTYGEGTPEEKTFYVELW 59

Query: 67  DTAGQ----ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLK---------- 112
           D  G     E  +S  + FY   +  + V+D+  +K+ ++L  W  E L           
Sbjct: 60  DVGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLV 119

Query: 113 ------QADPGEHEACPFVLLGNKID 132
                       +   P +++G K+D
Sbjct: 120 TNGDYDSEQFAGN-PVPLLVIGTKLD 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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 59.6 bits (144), Expect = 3e-11
 Identities = 38/121 (31%), Positives = 63/121 (52%), Gaps = 7/121 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK +V+GD  VGKT L+  Y  + F ++Y  T+  D     + +  K   L ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +F++++  W  E LK+  P      P++L+G +I
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPE-LKEYAPN----VPYLLIGTQI 114

Query: 132 D 132
           D
Sbjct: 115 D 115

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|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 58.7 bits (142), Expect = 3e-11
 Identities = 38/166 (22%), Positives = 75/166 (45%), Gaps = 10/166 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK+ ++G+   GK++L+++Y+   +  Q ++  G  F  KE+ +D +   L I D  G  
Sbjct: 1   LKLGIVGNLRSGKSALVHRYLTGSY-VQLESPEGGRF-KKEVLVDGQSHLLLIRDEGGAP 58

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             Q     F    D  + V+ +  + +F+++     +     +  E    P +L+G +  
Sbjct: 59  DAQ-----FAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISE---IPLILVGTQDA 110

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               + RV+   +A + CA      Y+ET A    N++  F   A+
Sbjct: 111 ISASNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQ 156

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 58.5 bits (141), Expect = 1e-10
 Identities = 44/190 (23%), Positives = 95/190 (50%), Gaps = 24/190 (12%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+GD+  GKT+L++ +  + + + Y  T+  ++ T   ++D   + L +WDT+G   
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENY-TASFEIDKHRIELNMWDTSGSSY 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  ++ +D++  +T +S L+ W+ E          E CP    VL+G 
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGE--------TQEFCPNAKLVLVGC 113

Query: 130 KID--TDGGSSRVVPQKKALEWCAYRGN--------IPYFETSAKEDCN-IDEAFLCVAE 178
           K+D  TD  + R + +++ +     +G+        + Y E S++   N + + F     
Sbjct: 114 KLDMRTDLSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVFHVTTL 173

Query: 179 IALKNEHKDI 188
            +++ EH  +
Sbjct: 174 ASVRREHPSL 183

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

 Score = 56.4 bits (137), Expect = 3e-10
 Identities = 38/161 (23%), Positives = 69/161 (42%), Gaps = 10/161 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           ++++LG  G GKT+++ + +          TIG  F  + ++   K V   +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYK-LKLGEVVTTIPTIG--FNVETVEY--KNVKFTVWDVGGQDK 55

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            + L   +Y   D  + V D + ++  E  +N   + L +    E +  P ++L NK D 
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEE---ELKGAPLLILANKQDL 112

Query: 134 DG-GSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            G  +   + +   LE    R        SA     +DE  
Sbjct: 113 PGALTESELIELLGLESIKGR-RWHIQPCSAVTGDGLDEGL 152

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 55.8 bits (134), Expect = 1e-09
 Identities = 33/123 (26%), Positives = 66/123 (53%), Gaps = 13/123 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT+++     + + + Y  T+  ++ T  L+ +++ V L +WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPY 73

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  +L +D++  + F+S L+ WR E L        + CP    +L+G 
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEIL--------DYCPSTRILLIGC 125

Query: 130 KID 132
           K D
Sbjct: 126 KTD 128

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|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 54.5 bits (132), Expect = 1e-09
 Identities = 31/126 (24%), Positives = 53/126 (42%), Gaps = 8/126 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+++ +    +       TIG  F  + +    K V   +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEI-VTTIPTIG--FNVETVTY--KNVKFTVWDVGGQE 69

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             + L   ++   D  + V D   +   E     +EE     +  E    P ++L NK D
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEA---KEELHALLNEEELADAPLLILANKQD 126

Query: 133 TDGGSS 138
             G  S
Sbjct: 127 LPGAMS 132

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

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 54.1 bits (131), Expect = 5e-09
 Identities = 36/127 (28%), Positives = 59/127 (46%), Gaps = 13/127 (10%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADF-VTKELQMDDKLVTLQIWDTAGQE 72
           KV+++G  G GK+S M   +++ +S +    +GA   V +        +TL +WD  GQ+
Sbjct: 1   KVLLMGLRGSGKSS-MRSIIFSNYSPRDTLRLGATIDVEQSHVRFLGNLTLNLWDCPGQD 59

Query: 73  RFQSLGSAFYRGA---DCCVLVY--DVNVQKTFESLQNWRE--EFLKQADPGEHEACPFV 125
            F        +     +  VL+Y  DV  ++  E L    +  E L Q  P    A  FV
Sbjct: 60  DFMENYLTRQKEHIFSNVGVLIYVFDVESREYEEDLATLVKIIEALYQYSP---NAKVFV 116

Query: 126 LLGNKID 132
           L+ +K+D
Sbjct: 117 LI-HKMD 122

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

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

 Score = 51.3 bits (123), Expect = 3e-08
 Identities = 37/124 (29%), Positives = 64/124 (51%), Gaps = 11/124 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---DDKLVTLQIWDTA 69
           L +++LG    GKT+++ +  +N+F      T G  F T+++++   + K VT   WD  
Sbjct: 4   LHIVMLGLDSAGKTTVLYRLKFNEFVNTV-PTKG--FNTEKIKVSLGNAKGVTFHFWDVG 60

Query: 70  GQERFQSLGSAFYRGADCCVLVYD-VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           GQE+ + L  ++ R  D  V V D V+V    E ++  + E  K     E++  P ++L 
Sbjct: 61  GQEKLRPLWKSYTRCTDGIVFVVDSVDV----ERMEEAKTELHKITKFSENQGVPVLVLA 116

Query: 129 NKID 132
           NK D
Sbjct: 117 NKQD 120

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

 Score = 46.6 bits (111), Expect = 1e-06
 Identities = 33/123 (26%), Positives = 59/123 (47%), Gaps = 9/123 (7%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +V++LG    GK++L+ +  + +       T+G +    +L+   K ++L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTTI-PTVGFNVEMLQLE---KHLSLTVWDVGGQEK 56

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEH-EACPFVLLGNKID 132
            +++   +    D  V V D + +   +  Q   +  LK     EH +  P VLL NK D
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKN----EHIKGVPVVLLANKQD 112

Query: 133 TDG 135
             G
Sbjct: 113 LPG 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|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 44.9 bits (107), Expect = 5e-06
 Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 1/93 (1%)

Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDT 68
           RN+    VLG  G GK++L+  ++   FSQ  Y  TI   +    +++  +   L + + 
Sbjct: 2   RNVFLCFVLGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQEKYLILREV 61

Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFE 101
              E    L  A     D   LVYD +   +F 
Sbjct: 62  GEDEEAILLNDAELAACDVACLVYDSSDPNSFS 94

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|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score = 44.4 bits (106), Expect = 5e-06
 Identities = 46/189 (24%), Positives = 71/189 (37%), Gaps = 48/189 (25%)

Query: 15  VIVLGDSGVGKTSLM-----NQYVYNKF---SQQYKATIGADFVTKELQMDDKLVTLQIW 66
           V V+G    GKT+L+           +    +Q     IGA  V  ++      +T    
Sbjct: 3   VTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQH----IGAYQVPIDV--KIPGIT--FI 54

Query: 67  DTAGQERFQSLGSAFYRGADCC---VLVYDVN--VQK-TFESLQNWREEFLKQADPGEHE 120
           DT G E F ++ +   RGA      +LV   +  V   T E++        K A+     
Sbjct: 55  DTPGHEAFTNMRA---RGASVTDIAILVVAADDGVMPQTIEAIN-----HAKAAN----- 101

Query: 121 ACPFVLLGNKIDTDGGSS----RVVPQKKAL-----EWCAYRGNIPYFETSAKEDCNIDE 171
             P ++  NKID   G+     RV  +   L     EW    G++     SAK    ID+
Sbjct: 102 -VPIIVAINKIDKPYGTEADPERVKNELSELGLVGEEW---GGDVSIVPISAKTGEGIDD 157

Query: 172 AFLCVAEIA 180
               +  +A
Sbjct: 158 LLEAILLLA 166

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. Length = 169

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 44.8 bits (106), Expect = 7e-06
 Identities = 41/167 (24%), Positives = 64/167 (38%), Gaps = 31/167 (18%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYN------------KFSQQYKATIGADFVTKELQMDDKLV 61
           K++V+G  G GKT+ +                      +   T+  DF + EL  +D  V
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELD-EDTGV 70

Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            L  + T GQERF+ +     RGA   +++ D +   TF        E +          
Sbjct: 71  HL--FGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFH------AEEIIDFL--TSRN 120

Query: 122 C-PFVLLGNKIDTDGGSSRVVPQK--KALEWCAYRGNIPYFETSAKE 165
             P V+  NK D         P+K  +AL+      ++P  E  A E
Sbjct: 121 PIPVVVAINKQDLFDALP---PEKIREALKLELL--SVPVIEIDATE 162

Length = 187

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 28/120 (23%), Positives = 54/120 (45%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+++ Q + ++       T G  F  K +Q D     L +WD  GQ 
Sbjct: 16  VRILLLGLDNAGKTTILKQ-LASEDISHITPTQG--FNIKNVQADGF--KLNVWDIGGQR 70

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + +     ++   D  + V D   +K FE      +E ++  +  +    P ++  NK D
Sbjct: 71  KIRPYWRNYFENTDVLIYVIDSADRKRFEEA---GQELVELLEEEKLAGVPVLVFANKQD 127

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

 Score = 42.3 bits (100), Expect = 3e-05
 Identities = 35/126 (27%), Positives = 55/126 (43%), Gaps = 16/126 (12%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYK--------ATIGADFVTKELQMDDKLVTLQIW 66
           V++LG    GKT+ + Q    KFS+ YK         T+G +  T E+        L  W
Sbjct: 2   VLILGLDNAGKTTFLEQ-TKTKFSKNYKGLNPSKITPTVGLNIGTIEVGK----ARLMFW 56

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           D  GQE  +SL   +Y  +   + V D   ++ F   ++  E+ +        E  P ++
Sbjct: 57  DLGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEAL---EGVPLLV 113

Query: 127 LGNKID 132
           L NK D
Sbjct: 114 LANKQD 119

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|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 42.0 bits (99), Expect = 4e-05
 Identities = 30/127 (23%), Positives = 57/127 (44%), Gaps = 6/127 (4%)

Query: 15  VIVLGDSGVGKTSLMNQY-VYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           ++VLG    GKT+++NQ    N  SQ    T+G  F  +  +  +  ++   +D +GQ +
Sbjct: 2   ILVLGLDNSGKTTIINQLKPSNAQSQNIVPTVG--FNVESFKKGN--LSFTAFDMSGQGK 57

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           ++ L   +Y+     + V D + +      ++  E  L   D  +H   P +   NK+D 
Sbjct: 58  YRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDI-KHRRIPILFYANKMDL 116

Query: 134 DGGSSRV 140
               + V
Sbjct: 117 PDALTAV 123

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

 Score = 42.0 bits (99), Expect = 5e-05
 Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 11/83 (13%)

Query: 14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGAD---FVTKELQMDDKLVTLQIWDTAG 70
          KVI++G    GKT+++ Q++  +       TIG++    V K ++         +WD  G
Sbjct: 17 KVIIVGLDNAGKTTILYQFLLGE-VVHTSPTIGSNVEEIVYKNIR-------FLMWDIGG 68

Query: 71 QERFQSLGSAFYRGADCCVLVYD 93
          QE  +S  + +Y   D  +LV D
Sbjct: 69 QESLRSSWNTYYTNTDAVILVID 91

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

 Score = 41.9 bits (98), Expect = 6e-05
 Identities = 46/202 (22%), Positives = 79/202 (39%), Gaps = 55/202 (27%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT---------IGADFVTKELQ------M 56
            +K +V+GD+ VGKT L+     NK   QY+           I    V +E+       +
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV 61

Query: 57  DDKLVTLQIWDTAG----QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREE-- 109
           D   V+L++WDT G      RF     A+ R +D  +L + +    +  +++  W  E  
Sbjct: 62  DGVSVSLRLWDTFGDHDKDRRF-----AYGR-SDVVLLCFSIASPNSLRNVKTMWYPEIR 115

Query: 110 -FLKQADPGEHEACPFVLLGNKID-----------------TDGGSSRVVPQKKALEWCA 151
            F  +         P +L+G K+D                     ++ ++P +       
Sbjct: 116 HFCPRV--------PVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAK 167

Query: 152 YRGNIPYFETSAKEDCNIDEAF 173
             G IPY+ETS      + + F
Sbjct: 168 ELG-IPYYETSVVTQFGVKDVF 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|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 39.6 bits (92), Expect = 3e-04
 Identities = 32/125 (25%), Positives = 52/125 (41%), Gaps = 8/125 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +V+ LG  G GKT+++ +   ++F Q    TIG +  T E     K +   IWD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFMQPI-PTIGFNVETVEY----KNLKFTIWDVGGKHK 55

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            + L   +Y      V V D + +   + +     E  K     E      ++  NK D 
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHR---DRVSEAHSELAKLLTEKELRDALLLIFANKQDV 112

Query: 134 DGGSS 138
            G  S
Sbjct: 113 AGALS 117

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

 Score = 39.1 bits (91), Expect = 5e-04
 Identities = 26/122 (21%), Positives = 53/122 (43%), Gaps = 12/122 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA--TIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++++++G    GKT+++ +    K  +      TIG +  T       K ++  +WD  G
Sbjct: 14  MRILMVGLDAAGKTTILYKL---KLGESVTTIPTIGFNVETVTY----KNISFTVWDVGG 66

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           Q++ + L   +Y      + V D N +   + +   REE  +  +  E      ++  NK
Sbjct: 67  QDKIRPLWRHYYTNTQGLIFVVDSNDR---DRIDEAREELHRMLNEDELRDAVILVFANK 123

Query: 131 ID 132
            D
Sbjct: 124 QD 125

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 = 38.8 bits (91), Expect = 6e-04
 Identities = 31/126 (24%), Positives = 58/126 (46%), Gaps = 8/126 (6%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++ LG    GKT+L++  + +    Q+  T+     ++EL + +  V    +D  G E+
Sbjct: 21  KIVFLGLDNAGKTTLLH-MLKDDRLAQHVPTLH--PTSEELTIGN--VKFTTFDLGGHEQ 75

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            + +   ++   +   +V+ V+     E  Q  +EE     +  E    P ++LGNKID 
Sbjct: 76  ARRVWKDYF--PEVDGIVFLVDAAD-PERFQESKEELDSLLNDEELANVPILILGNKIDK 132

Query: 134 DGGSSR 139
            G  S 
Sbjct: 133 PGAVSE 138

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|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2

 Score = 39.8 bits (93), Expect = 6e-04
 Identities = 45/174 (25%), Positives = 71/174 (40%), Gaps = 49/174 (28%)

Query: 15  VIVLGDSGVGKTSLMNQY----VYNKFSQQYKATIGADFVT------------KELQMDD 58
           V VLG    GKT+L+++     V  + +      IGA  +             K+ ++  
Sbjct: 7   VSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRL 66

Query: 59  KLVTLQIWDTAGQERFQSL---GSAFYRGADCCVLVYDVN---VQKTFESLQNWREEFLK 112
           K+  L   DT G E F +L   G A    AD  +L+ D+N     +T E+L       L+
Sbjct: 67  KIPGLLFIDTPGHEAFTNLRKRGGAL---ADLAILIVDINEGFKPQTQEAL-----NILR 118

Query: 113 QADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED 166
                     PFV+  NKID   G            W ++ G  P+ E+ +K++
Sbjct: 119 MY------KTPFVVAANKIDRIPG------------WRSHEGR-PFMESFSKQE 153

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; the alignment generated by This model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region [Protein synthesis, Translation factors]. Length = 590

>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2; Provisional

 Score = 39.5 bits (92), Expect = 8e-04
 Identities = 31/87 (35%), Positives = 40/87 (45%), Gaps = 20/87 (22%)

Query: 52  KELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG---ADCCVLVYDVN---VQKTFESLQN 105
           K L+ + K+  L   DT G E F SL     RG   AD  VLV D+N     +T E++  
Sbjct: 517 KLLKAEIKIPGLLFIDTPGHEAFTSLRK---RGGSLADLAVLVVDINEGFKPQTIEAI-- 571

Query: 106 WREEFLKQADPGEHEACPFVLLGNKID 132
                L+Q         PFV+  NKID
Sbjct: 572 ---NILRQY------KTPFVVAANKID 589

Length = 1049

>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated

 Score = 38.6 bits (91), Expect = 0.002
 Identities = 43/150 (28%), Positives = 61/150 (40%), Gaps = 54/150 (36%)

Query: 15  VIVLGDSGVGKTSLMNQY----VYNK----FSQQYKATIGADFV--------TKELQMDD 58
           V+VLG    GKT+L+++     V  K     +Q     IGA  V           L+   
Sbjct: 9   VVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQH----IGATEVPIDVIEKIAGPLK--- 61

Query: 59  KLVTLQIW-------DTAGQERFQSLGSAFYRG---ADCCVLVYDVN--VQK-TFESLQN 105
           K + +++        DT G E F +L     RG   AD  +LV D+N   Q  T E++  
Sbjct: 62  KPLPIKLKIPGLLFIDTPGHEAFTNLRK---RGGALADIAILVVDINEGFQPQTIEAIN- 117

Query: 106 WREEFLKQADPGEHEAC--PFVLLGNKIDT 133
                LK+           PFV+  NKID 
Sbjct: 118 ----ILKR--------RKTPFVVAANKIDR 135

Length = 586

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

 Score = 37.1 bits (86), Expect = 0.002
 Identities = 26/123 (21%), Positives = 51/123 (41%), Gaps = 8/123 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+++ +    + S     T+G +  T       K V   +WD  GQ+
Sbjct: 10  MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDVGGQD 64

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +Y G    + V D   +   +     R+E  +  +  E      ++  NK D
Sbjct: 65  KIRPLWRHYYTGTQGLIFVVDSADRDRIDEA---RQELHRIINDREMRDALLLVFANKQD 121

Query: 133 TDG 135
              
Sbjct: 122 LPD 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	210
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
PLN03108	210	Rab family protein; Provisional	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	100.0
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	100.0
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.98
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.98
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.96
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.96
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.96
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.96
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.95
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.95
PTZ00099	176	rab6; Provisional	99.95
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.95
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.94
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.94
PRK12299	335	obgE GTPase CgtA; Reviewed	99.94
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.94
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.94
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.93
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.93
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.93
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.93
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.92
PRK15494	339	era GTPase Era; Provisional	99.92
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.92
PRK03003	472	GTP-binding protein Der; Reviewed	99.92
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.92
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.92
PRK04213	201	GTP-binding protein; Provisional	99.92
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.92
cd00881	189	GTP_translation_factor GTP translation factor fami	99.92
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.91
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.91
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.91
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.91
PRK12297	424	obgE GTPase CgtA; Reviewed	99.91
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.91
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.9
PRK12298	390	obgE GTPase CgtA; Reviewed	99.9
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.9
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.9
PRK11058	426	GTPase HflX; Provisional	99.9
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.9
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.9
PRK03003	472	GTP-binding protein Der; Reviewed	99.9
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.9
PRK00089	292	era GTPase Era; Reviewed	99.9
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.9
PRK12296	500	obgE GTPase CgtA; Reviewed	99.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.9
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.89
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.89
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.89
PRK00093	435	GTP-binding protein Der; Reviewed	99.89
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.89
COG1159	298	Era GTPase [General function prediction only]	99.89
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.89
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.89
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.89
PRK05306	787	infB translation initiation factor IF-2; Validated	99.88
CHL00189	742	infB translation initiation factor 2; Provisional	99.88
PRK00093	435	GTP-binding protein Der; Reviewed	99.87
KOG1673	205	consensus Ras GTPases [General function prediction	99.87
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.87
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.87
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.87
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.87
PRK12317	425	elongation factor 1-alpha; Reviewed	99.87
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.87
PRK05433	600	GTP-binding protein LepA; Provisional	99.87
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.87
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.87
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.86
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.86
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.86
COG1160	444	Predicted GTPases [General function prediction onl	99.86
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.85
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.85
COG0486	454	ThdF Predicted GTPase [General function prediction	99.85
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.84
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.84
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.84
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.84
PRK10218	607	GTP-binding protein; Provisional	99.84
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.84
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.84
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.83
PRK04004	586	translation initiation factor IF-2; Validated	99.83
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.83
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.83
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.83
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.82
COG2229	187	Predicted GTPase [General function prediction only	99.82
COG0218	200	Predicted GTPase [General function prediction only	99.82
PRK12735	396	elongation factor Tu; Reviewed	99.82
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.82
PRK12736	394	elongation factor Tu; Reviewed	99.81
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.81
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.8
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.8
CHL00071	409	tufA elongation factor Tu	99.8
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.79
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.79
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.79
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.78
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.78
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.78
COG1084	346	Predicted GTPase [General function prediction only	99.77
PLN03126	478	Elongation factor Tu; Provisional	99.77
PLN00043	447	elongation factor 1-alpha; Provisional	99.77
COG2262	411	HflX GTPases [General function prediction only]	99.77
PRK00049	396	elongation factor Tu; Reviewed	99.77
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.76
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.76
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.76
PLN03127	447	Elongation factor Tu; Provisional	99.75
COG1163	365	DRG Predicted GTPase [General function prediction	99.75
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.75
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.74
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.74
PTZ00141	446	elongation factor 1- alpha; Provisional	99.74
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.74
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.74
KOG1145	683	consensus Mitochondrial translation initiation fac	99.73
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.73
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.72
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.72
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.72
PRK13351	687	elongation factor G; Reviewed	99.71
COG0536	369	Obg Predicted GTPase [General function prediction	99.7
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.7
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.69
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.68
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.68
COG3596	296	Predicted GTPase [General function prediction only	99.67
PRK09602	396	translation-associated GTPase; Reviewed	99.66
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.65
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.65
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.65
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.64
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.64
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.64
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.63
PRK12739	691	elongation factor G; Reviewed	99.61
PRK09866	741	hypothetical protein; Provisional	99.6
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.59
PRK12740	668	elongation factor G; Reviewed	99.59
PRK00007	693	elongation factor G; Reviewed	99.58
PRK14845	1049	translation initiation factor IF-2; Provisional	99.58
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.57
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.57
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.57
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.56
KOG0090	238	consensus Signal recognition particle receptor, be	99.51
PRK13768	253	GTPase; Provisional	99.51
PTZ00258	390	GTP-binding protein; Provisional	99.51
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.5
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.5
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.49
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.49
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.49
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.48
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.47
PRK07560	731	elongation factor EF-2; Reviewed	99.46
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.46
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.45
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.45
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.45
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.45
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.44
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.44
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.43
PTZ00416	836	elongation factor 2; Provisional	99.43
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.43
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.43
PRK09601	364	GTP-binding protein YchF; Reviewed	99.43
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.42
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.41
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.39
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.38
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.37
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.37
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.36
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.35
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.34
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.34
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.33
KOG0410	410	consensus Predicted GTP binding protein [General f	99.32
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.32
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.31
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.31
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.3
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.26
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.23
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.22
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.21
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.18
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.17
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.17
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.16
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.14
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.14
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.14
COG5258	527	GTPBP1 GTPase [General function prediction only]	99.13
KOG0460	449	consensus Mitochondrial translation elongation fac	99.08
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.05
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.02
KOG2486	320	consensus Predicted GTPase [General function predi	99.01
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.99
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.96
PRK12289	352	GTPase RsgA; Reviewed	98.94
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.93
PRK00098	298	GTPase RsgA; Reviewed	98.92
KOG1143	591	consensus Predicted translation elongation factor	98.91
PRK12288	347	GTPase RsgA; Reviewed	98.91
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.85
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.82
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.82
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.81
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.78
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.75
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.73
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.73
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.72
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.71
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.68
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.68
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.67
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.66
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.65
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.65
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.64
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.63
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.63
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.63
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.62
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.61
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.61
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.61
COG1161	322	Predicted GTPases [General function prediction onl	98.59
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.58
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.58
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.56
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.55
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.51
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.46
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.45
PRK10416	318	signal recognition particle-docking protein FtsY;	98.45
PRK14974	336	cell division protein FtsY; Provisional	98.41
PRK12288	347	GTPase RsgA; Reviewed	98.4
cd03112	158	CobW_like The function of this protein family is u	98.39
PRK13796	365	GTPase YqeH; Provisional	98.38
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.38
PRK01889	356	GTPase RsgA; Reviewed	98.37
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	98.35
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.35
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.35
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.34
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.33
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.32
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.3
PRK13796	365	GTPase YqeH; Provisional	98.28
PRK12289	352	GTPase RsgA; Reviewed	98.27
COG1162	301	Predicted GTPases [General function prediction onl	98.24
PRK13695	174	putative NTPase; Provisional	98.2
KOG1533	290	consensus Predicted GTPase [General function predi	98.15
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.14
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.12
PRK00098	298	GTPase RsgA; Reviewed	98.09
KOG1534	273	consensus Putative transcription factor FET5 [Tran	98.08
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.07
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.05
PRK11537	318	putative GTP-binding protein YjiA; Provisional	98.04
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.03
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.02
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.0
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.0
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.98
COG3523	1188	IcmF Type VI protein secretion system component Va	97.98
COG1162	301	Predicted GTPases [General function prediction onl	97.95
cd03114	148	ArgK-like The function of this protein family is u	97.94
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.91
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.87
PRK10867	433	signal recognition particle protein; Provisional	97.87
COG0523	323	Putative GTPases (G3E family) [General function pr	97.86
TIGR00959	428	ffh signal recognition particle protein. This mode	97.85
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.83
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.74
KOG2484	435	consensus GTPase [General function prediction only	97.73
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.71
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.7
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.69
KOG3929	363	consensus Uncharacterized conserved protein [Funct	97.68
KOG4273	418	consensus Uncharacterized conserved protein [Funct	97.67
PRK08118	167	topology modulation protein; Reviewed	97.64
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.62
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.62
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.61
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.61
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.58
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.58
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.57
PRK07261	171	topology modulation protein; Provisional	97.57
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.57
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.55
KOG0099	379	consensus G protein subunit Galphas, small G prote	97.52
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.52
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.52
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.49
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.49
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.48
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.47
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.47
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.45
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.43
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.43
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.41
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.41
PF00004	132	AAA: ATPase family associated with various cellula	97.38
PTZ00088	229	adenylate kinase 1; Provisional	97.38
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.38
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.35
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.34
smart00382	148	AAA ATPases associated with a variety of cellular	97.33
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.33
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.31
PRK05480	209	uridine/cytidine kinase; Provisional	97.3
PF05729	166	NACHT: NACHT domain	97.29
PRK06217	183	hypothetical protein; Validated	97.29
PRK14530	215	adenylate kinase; Provisional	97.29
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.29
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.28
PRK14738	206	gmk guanylate kinase; Provisional	97.28
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.27
PRK03839	180	putative kinase; Provisional	97.26
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.25
PLN02200	234	adenylate kinase family protein	97.25
PRK10646	153	ADP-binding protein; Provisional	97.25
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.24
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.24
cd03111	106	CpaE_like This protein family consists of proteins	97.22
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.21
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.21
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.2
PRK08233	182	hypothetical protein; Provisional	97.2
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.2
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.2
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.19
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.18
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.17
PRK14531	183	adenylate kinase; Provisional	97.17
PRK14532	188	adenylate kinase; Provisional	97.17
PRK13949	169	shikimate kinase; Provisional	97.17
PRK13851	344	type IV secretion system protein VirB11; Provision	97.17
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.17
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.17
PRK01889	356	GTPase RsgA; Reviewed	97.14
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.13
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.12
COG0802	149	Predicted ATPase or kinase [General function predi	97.11
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.1
PRK02496	184	adk adenylate kinase; Provisional	97.1
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.09
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.08
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.07
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.06
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.06
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.06
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.05
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.05
PTZ00301	210	uridine kinase; Provisional	97.04
PRK14737	186	gmk guanylate kinase; Provisional	97.04
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.04
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.04
PRK06547	172	hypothetical protein; Provisional	97.03
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.03
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	97.02

>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=4.6e-44  Score=242.66  Aligned_cols=179  Identities=40%  Similarity=0.720  Sum_probs=168.5

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      ...-++.|||+|+|+.|+|||+|+.||..+.|...+..|+++++..+.+.++++.+++++|||+||++|+.+..+|++++
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCC
Confidence            44567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc-EEEecCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP-YFETSAK  164 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~  164 (210)
                      |++|+|||+++..||+++..|+.++.++...    ++|.++||||+|+.+.  +.+..++++.|+...+ ++ ++++||+
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~----~v~~lLVGNK~Dl~~~--~~v~~~~a~~fa~~~~-~~~f~ETSAK  155 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASE----NVPKLLVGNKCDLTEK--RVVSTEEAQEFADELG-IPIFLETSAK  155 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccC----CCCeEEEeeccccHhh--eecCHHHHHHHHHhcC-CcceeecccC
Confidence            9999999999999999999999999998776    7899999999999887  8999999999999999 55 9999999


Q ss_pred             CCCChHHHHHHHHHHHHhcccccccCC
Q 028305          165 EDCNIDEAFLCVAEIALKNEHKDIYYQ  191 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~~~~~~~  191 (210)
                      ++.||+++|..|+..+.+.........
T Consensus       156 ~~~NVe~~F~~la~~lk~~~~~~~~~~  182 (205)
T KOG0084|consen  156 DSTNVEDAFLTLAKELKQRKGLHVKWS  182 (205)
T ss_pred             CccCHHHHHHHHHHHHHHhcccCCCCC
Confidence            999999999999999998877655544

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=1.5e-43  Score=237.08  Aligned_cols=203  Identities=68%  Similarity=1.086  Sum_probs=184.0

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .+...+||.++|++|+|||||++++.+..|..++..+++.++..+.+.++++.+.+++|||+|+++|+++...+++.+|.
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDc   84 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADC   84 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCce
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      .+++||++++.+|+++..|.+++..++.+......|+||+|||+|+.+...+++..+.+...+...++++|+++||++..
T Consensus        85 Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   85 CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            99999999999999999999999999998888899999999999999887799999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHhcccccc---cCCCCCcceeccccccccccCC
Q 028305          168 NIDEAFLCVAEIALKNEHKDI---YYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      ||.++|..+.+.++..+..+.   ......+....+....+++|.|
T Consensus       165 NV~~AFe~ia~~aL~~E~~~~~~~~~~~d~i~~~~~~~~~~~~c~c  210 (210)
T KOG0394|consen  165 NVDEAFEEIARRALANEDREIAELADYSDQIVLSTKANNQSSGCEC  210 (210)
T ss_pred             cHHHHHHHHHHHHHhccchhhhhhhhcCcccccccccccCCCCCCC
Confidence            999999999999999986522   1223334443444444557877

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-41  Score=229.41  Aligned_cols=194  Identities=38%  Similarity=0.673  Sum_probs=172.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|+.++|||||+.|+..+.|.....++++..+..+.+.+++..+++.||||+|+++|.++.+.|+++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            46899999999999999999999999999888999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||+++.+||..+..|.+++.+...+    ++-+.+||||+|+.+.  +++..+++..++...+ ..++++||++|.|+
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~----~~vialvGNK~DL~~~--R~V~~~ea~~yAe~~g-ll~~ETSAKTg~Nv  155 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASP----NIVIALVGNKADLLER--REVEFEEAQAYAESQG-LLFFETSAKTGENV  155 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCC----CeEEEEecchhhhhhc--ccccHHHHHHHHHhcC-CEEEEEecccccCH
Confidence            999999999999999999999998775    7778899999999875  8999999999999998 99999999999999


Q ss_pred             HHHHHHHHHHHHhcccccccC---CCCCcceecc-ccccccccCC
Q 028305          170 DEAFLCVAEIALKNEHKDIYY---QPQGISETVS-EVEQRGGCAC  210 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~~~---~~~~~~~~~~-~~~~~~~c~c  210 (210)
                      +++|..|.+++..........   .+...-.... .+...++|||
T Consensus       156 ~~if~~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~~~~~~~~~C~  200 (200)
T KOG0092|consen  156 NEIFQAIAEKLPCSDPQERQGLPNRRQGVDLNSNQEPARPSGCCA  200 (200)
T ss_pred             HHHHHHHHHhccCccccccccccccccceecccCCCCcCcCCcCC
Confidence            999999999999887754431   1122222111 4777888954

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=8.8e-41  Score=225.96  Aligned_cols=169  Identities=36%  Similarity=0.619  Sum_probs=158.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+|+|+.++||||||+||+.+.|...|.+++++++....+.+.+..+.+++|||+||++|+.+.+.|++++.++|+
T Consensus        21 k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vavi  100 (221)
T KOG0094|consen   21 KKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVI  100 (221)
T ss_pred             eEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEE
Confidence            45999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||+++..+|++..+|+..+.+....   .++-+++||||.||.+.  +++..+++...+++++ ..|+++||+.|.||+
T Consensus       101 VyDit~~~Sfe~t~kWi~dv~~e~gs---~~viI~LVGnKtDL~dk--rqvs~eEg~~kAkel~-a~f~etsak~g~NVk  174 (221)
T KOG0094|consen  101 VYDITDRNSFENTSKWIEDVRRERGS---DDVIIFLVGNKTDLSDK--RQVSIEEGERKAKELN-AEFIETSAKAGENVK  174 (221)
T ss_pred             EEeccccchHHHHHHHHHHHHhccCC---CceEEEEEcccccccch--hhhhHHHHHHHHHHhC-cEEEEecccCCCCHH
Confidence            99999999999999999999876443   35788999999999987  8999999999999999 799999999999999


Q ss_pred             HHHHHHHHHHHhccc
Q 028305          171 EAFLCVAEIALKNEH  185 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~  185 (210)
                      .+|..|..++.....
T Consensus       175 ~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  175 QLFRRIAAALPGMEV  189 (221)
T ss_pred             HHHHHHHHhccCccc
Confidence            999999888877755

>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=1.9e-40  Score=228.25  Aligned_cols=175  Identities=40%  Similarity=0.682  Sum_probs=166.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +.+..+||+++|++|||||+|+.+|..+.|...+..+.++++..+.+..++..+.+++|||+|+++++.+...|++.|++
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~g   87 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG   87 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCe
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||+++..+|+++..|+..+..+...    ++|.++||||+|+...  ++++.+.++.++..++ +.++++||++|.
T Consensus        88 i~LvyDitne~Sfeni~~W~~~I~e~a~~----~v~~~LvGNK~D~~~~--R~V~~e~ge~lA~e~G-~~F~EtSAk~~~  160 (207)
T KOG0078|consen   88 ILLVYDITNEKSFENIRNWIKNIDEHASD----DVVKILVGNKCDLEEK--RQVSKERGEALAREYG-IKFFETSAKTNF  160 (207)
T ss_pred             eEEEEEccchHHHHHHHHHHHHHHhhCCC----CCcEEEeecccccccc--ccccHHHHHHHHHHhC-CeEEEccccCCC
Confidence            99999999999999999999999988765    8999999999999875  9999999999999998 999999999999


Q ss_pred             ChHHHHHHHHHHHHhccccccc
Q 028305          168 NIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      ||+++|..|++.+.....+...
T Consensus       161 NI~eaF~~La~~i~~k~~~~~~  182 (207)
T KOG0078|consen  161 NIEEAFLSLARDILQKLEDAEL  182 (207)
T ss_pred             CHHHHHHHHHHHHHhhcchhhh
Confidence            9999999999999987665443

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.5e-39  Score=213.08  Aligned_cols=175  Identities=37%  Similarity=0.576  Sum_probs=162.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......+||+++|..|+|||||+.+|+.+.|.+..+.+++.++..+.+.+++..+++.+|||+|+++|+.++++|++.+.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            34567899999999999999999999999999888888999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++.+++|..+..|.+++..+....   ++-.++|+||+|..+.  +.+..+++..|+++++ .-++++||++.
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~---diikmlVgNKiDkes~--R~V~reEG~kfAr~h~-~LFiE~SAkt~  159 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNP---DIIKMLVGNKIDKESE--RVVDREEGLKFARKHR-CLFIECSAKTR  159 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCc---cHhHhhhcccccchhc--ccccHHHHHHHHHhhC-cEEEEcchhhh
Confidence            9999999999999999999999998876543   6677899999998765  8999999999999999 89999999999


Q ss_pred             CChHHHHHHHHHHHHhccccc
Q 028305          167 CNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      +||...|+.+++++++...-.
T Consensus       160 ~~V~~~FeelveKIi~tp~l~  180 (209)
T KOG0080|consen  160 ENVQCCFEELVEKIIETPSLW  180 (209)
T ss_pred             ccHHHHHHHHHHHHhcCcchh
Confidence            999999999999999876633

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.8e-39  Score=217.96  Aligned_cols=175  Identities=34%  Similarity=0.634  Sum_probs=165.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....||++++|+.|+|||+|+.+|+...|.+.+..|.++++....+++++..+++++|||+|++.+++....|++.+.+
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||+++.++|..+..|+..+.++..+    ++-+++++||+|+...  +.+..+|++.|+++.+ ..++++||+++.
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~----NmvImLiGNKsDL~~r--R~Vs~EEGeaFA~ehg-LifmETSakt~~  154 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNE----NMVIMLIGNKSDLEAR--REVSKEEGEAFAREHG-LIFMETSAKTAE  154 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCC----CcEEEEEcchhhhhcc--ccccHHHHHHHHHHcC-ceeehhhhhhhh
Confidence            99999999999999999999999988644    8899999999999877  8999999999999988 889999999999


Q ss_pred             ChHHHHHHHHHHHHhccccccc
Q 028305          168 NIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      ||+|+|......+++..+.+..
T Consensus       155 ~VEEaF~nta~~Iy~~~q~g~~  176 (216)
T KOG0098|consen  155 NVEEAFINTAKEIYRKIQDGVF  176 (216)
T ss_pred             hHHHHHHHHHHHHHHHHHhccc
Confidence            9999999999999988775544

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=8.2e-39  Score=229.77  Aligned_cols=195  Identities=38%  Similarity=0.633  Sum_probs=163.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+++|++|+|||||+++|+++.+...+.++.+.++....+.++ +..+.+.+|||+|++.+..++..+++++|++|+|
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            589999999999999999999999888888898888877777777 7789999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+|+.+..|+..+..........++|+++|+||+|+...  +....+++..+++..+...++++||++|.|+++
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e  158 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKR--LAKDGEQMDQFCKENGFIGWFETSAKEGINIEE  158 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccc--cccCHHHHHHHHHHcCCceEEEEeCCCCCCHHH
Confidence            999999999999999988876543223347899999999999753  556778889999888767899999999999999


Q ss_pred             HHHHHHHHHHhcccccccCC-----CCCcceeccccccccccCC
Q 028305          172 AFLCVAEIALKNEHKDIYYQ-----PQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       172 ~~~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~c~c  210 (210)
                      +|++|++.+.+..+......     +...-.+..+..+.++| |
T Consensus       159 ~f~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  201 (201)
T cd04107         159 AMRFLVKNILANDKNLQQAETPEDGSVIDLKQTTTKKKSKGC-C  201 (201)
T ss_pred             HHHHHHHHHHHhchhhHhhcCCCcccccccccceeccccCCC-C
Confidence            99999999988765333322     22233445677777899 7

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.

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=9.7e-38  Score=220.89  Aligned_cols=176  Identities=31%  Similarity=0.549  Sum_probs=156.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+++|+.|+|||||+++|..+.+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++.+|++|
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            46799999999999999999999998888777778888887777888899999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+|+.+..|+..+.....     ++|++||+||.|+...  +.+..++++.+++..+ ..++++||++|.||
T Consensus        84 lVfD~t~~~Sf~~~~~w~~~i~~~~~-----~~piilVGNK~DL~~~--~~v~~~~~~~~a~~~~-~~~~e~SAk~g~~V  155 (189)
T cd04121          84 LVYDITNRWSFDGIDRWIKEIDEHAP-----GVPKILVGNRLHLAFK--RQVATEQAQAYAERNG-MTFFEVSPLCNFNI  155 (189)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECccchhc--cCCCHHHHHHHHHHcC-CEEEEecCCCCCCH
Confidence            99999999999999999999976542     7899999999999754  5677889999999887 89999999999999


Q ss_pred             HHHHHHHHHHHHhcccccccCCCC
Q 028305          170 DEAFLCVAEIALKNEHKDIYYQPQ  193 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~~~~~~  193 (210)
                      +++|+++++.+...+.+.+..+++
T Consensus       156 ~~~F~~l~~~i~~~~~~~~~~~~~  179 (189)
T cd04121         156 TESFTELARIVLMRHGRPPQSPPQ  179 (189)
T ss_pred             HHHHHHHHHHHHHhcCCCCCCCCc
Confidence            999999999998877755554443

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

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=5.7e-38  Score=215.15  Aligned_cols=174  Identities=39%  Similarity=0.659  Sum_probs=164.8

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ..-++.|||+++|++++|||-|+.||..+.|..+..++++.++....+.++++.++.+||||+|+++|+.....|++.+.
T Consensus         9 ~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAv   88 (222)
T KOG0087|consen    9 EEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAV   88 (222)
T ss_pred             cccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccc
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++...+|+++.+|+.++..+...    ++++++|+||+||..-  +.++.++++.+++..+ ..++++||.++
T Consensus        89 GAllVYDITr~~Tfenv~rWL~ELRdhad~----nivimLvGNK~DL~~l--raV~te~~k~~Ae~~~-l~f~EtSAl~~  161 (222)
T KOG0087|consen   89 GALLVYDITRRQTFENVERWLKELRDHADS----NIVIMLVGNKSDLNHL--RAVPTEDGKAFAEKEG-LFFLETSALDA  161 (222)
T ss_pred             eeEEEEechhHHHHHHHHHHHHHHHhcCCC----CeEEEEeecchhhhhc--cccchhhhHhHHHhcC-ceEEEeccccc
Confidence            999999999999999999999999988765    8999999999999874  8899999999999998 99999999999


Q ss_pred             CChHHHHHHHHHHHHhccccc
Q 028305          167 CNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      .|++++|..++..+++...++
T Consensus       162 tNVe~aF~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  162 TNVEKAFERVLTEIYKIVSKK  182 (222)
T ss_pred             ccHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998776644

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=9.5e-39  Score=206.59  Aligned_cols=191  Identities=38%  Similarity=0.686  Sum_probs=170.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++.+++|++|+|||+|+.+|..+.|+..|..+++.++..+.+.+++..++++||||+|++.|..+...+++..++++
T Consensus         6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~   85 (198)
T KOG0079|consen    6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVI   85 (198)
T ss_pred             HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEE
Confidence            45788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||+++.+||.+..+|+.++...+.     .+|-++|+||.|..+.  +.+..++.+.++...+ +.+|++|+++++|+
T Consensus        86 vVYDVTn~ESF~Nv~rWLeei~~ncd-----sv~~vLVGNK~d~~~R--rvV~t~dAr~~A~~mg-ie~FETSaKe~~Nv  157 (198)
T KOG0079|consen   86 VVYDVTNGESFNNVKRWLEEIRNNCD-----SVPKVLVGNKNDDPER--RVVDTEDARAFALQMG-IELFETSAKENENV  157 (198)
T ss_pred             EEEECcchhhhHhHHHHHHHHHhcCc-----cccceecccCCCCccc--eeeehHHHHHHHHhcC-chheehhhhhcccc
Confidence            99999999999999999999998876     7899999999999876  8899999999999999 99999999999999


Q ss_pred             HHHHHHHHHHHHhccc--ccccCCCCCcceeccccccccccCC
Q 028305          170 DEAFLCVAEIALKNEH--KDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      +..|.-|.+..++...  +.+..+....+....+.+.+ .| |
T Consensus       158 E~mF~cit~qvl~~k~r~~~~~~r~~~~~l~~n~~~~~-k~-c  198 (198)
T KOG0079|consen  158 EAMFHCITKQVLQAKLRESVEQQRADAVSLKDNSKSTK-KC-C  198 (198)
T ss_pred             hHHHHHHHHHHHHHHHhhcHHHHhhcceEeccCCCccc-cC-C
Confidence            9999999999888763  33334455555544444444 56 5

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=4.1e-37  Score=219.62  Aligned_cols=167  Identities=39%  Similarity=0.691  Sum_probs=149.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      ++|+++|+.|+|||||+++|..+.|...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++++|++|+||
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            36999999999999999999999998888889888888888889998999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++|+.+..|+..+.....    .++|+++|+||+|+...  +++..+++..+++......++++||++|.|++++
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~----~~~piilVgNK~DL~~~--~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~  154 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYAS----EDAELLLVGNKLDCETD--REISRQQGEKFAQQITGMRFCEASAKDNFNVDEI  154 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCC----CCCcEEEEEECcccccc--cccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHH
Confidence            99999999999999988766532    27899999999999754  6677888888888764478999999999999999


Q ss_pred             HHHHHHHHHhccc
Q 028305          173 FLCVAEIALKNEH  185 (210)
Q Consensus       173 ~~~l~~~~~~~~~  185 (210)
                      |+++++.+.+...
T Consensus       155 F~~l~~~~~~~~~  167 (202)
T cd04120         155 FLKLVDDILKKMP  167 (202)
T ss_pred             HHHHHHHHHHhCc
Confidence            9999999877543

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=8.8e-37  Score=217.55  Aligned_cols=190  Identities=38%  Similarity=0.627  Sum_probs=161.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+++|++|||||||+++|..+.+.. .+.++.+.++....+.+++..+.+.+|||||++.+......+++.+|++|+|
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            589999999999999999999888753 5667777777766778888889999999999999988888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++++++.+..|+..+......    ++|+++|+||+|+...  +....++...++...+ .+++++||++|.|+++
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~----~~piiiv~NK~Dl~~~--~~~~~~~~~~l~~~~~-~~~~e~Sa~~~~~v~~  153 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQE----DVVIMLLGNKADMSGE--RVVKREDGERLAKEYG-VPFMETSAKTGLNVEL  153 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEEcccchhc--cccCHHHHHHHHHHcC-CeEEEEeCCCCCCHHH
Confidence            9999999999999999888776432    6899999999999653  4556677888887777 7999999999999999


Q ss_pred             HHHHHHHHHHhcccccccCCCCCcceeccccccccccCC
Q 028305          172 AFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       172 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      +|.+|++.+............-..........|+++| |
T Consensus       154 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  191 (191)
T cd04112         154 AFTAVAKELKHRKYEQPDEGKFKISDYVTKQKKISRC-C  191 (191)
T ss_pred             HHHHHHHHHHHhccccCCCCcEEeccccCcccccCCC-C
Confidence            9999999998886654444443455666888999999 7

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.

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=1.8e-36  Score=215.60  Aligned_cols=187  Identities=38%  Similarity=0.683  Sum_probs=159.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||++|++.+...+..+++.+|++++||
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            58999999999999999999999998778888888887778888888899999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |+++++++..+..|+..+......    ++|+++|+||+|+.+.  +.+..++...+++..+ .+++++||++|.|++++
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~----~~~~ivv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~evSa~~~~~i~~~  153 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARE----NVIKVIVANKSDLVNN--KVVDSNIAKSFCDSLN-IPFFETSAKQSINVEEA  153 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECCCCccc--ccCCHHHHHHHHHHcC-CeEEEEeCCCCCCHHHH
Confidence            999999999999999988776432    5799999999999754  4556677777887776 69999999999999999


Q ss_pred             HHHHHHHHHhcccccccCCCCCcceeccccccccccCC
Q 028305          173 FLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       173 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      |.+|++.+.+.....+..+    ........++..|+|
T Consensus       154 f~~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~  187 (188)
T cd04125         154 FILLVKLIIKRLEEQELSP----KNIKQQFKKKNNCFI  187 (188)
T ss_pred             HHHHHHHHHHHhhcCcCCc----cccccccccccCccc
Confidence            9999999987665444433    444566777777876

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.

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=3e-36  Score=216.03  Aligned_cols=192  Identities=38%  Similarity=0.716  Sum_probs=162.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+++++
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            46899999999999999999999999888788888888887778888888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++++++.+..|+..+.....     ..|+++|+||+|+.+.  .....++...++...+ ..++++||++|.|+
T Consensus        84 lv~D~~~~~s~~~~~~~~~~i~~~~~-----~~piivVgNK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~gi  155 (199)
T cd04110          84 VVYDVTNGESFVNVKRWLQEIEQNCD-----DVCKVLVGNKNDDPER--KVVETEDAYKFAGQMG-ISLFETSAKENINV  155 (199)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEECCCCcCH
Confidence            99999999999999999998876543     6799999999999754  4456677788887777 88999999999999


Q ss_pred             HHHHHHHHHHHHhcccccccCCCCC----cceeccccccccccCC
Q 028305          170 DEAFLCVAEIALKNEHKDIYYQPQG----ISETVSEVEQRGGCAC  210 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~c~c  210 (210)
                      +++|++|.+.++......-......    .....+.+.+++.| |
T Consensus       156 ~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  199 (199)
T cd04110         156 EEMFNCITELVLRAKKDNLAKQQQQQQNDVVKLPKNSKRKKRC-C  199 (199)
T ss_pred             HHHHHHHHHHHHHhhhccCcccccCCccccCccchhccccccC-C
Confidence            9999999999988766443333222    33444566777888 6

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

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.4e-37  Score=201.30  Aligned_cols=180  Identities=36%  Similarity=0.580  Sum_probs=168.2

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      +...+..||++++|+.|+|||+|+++|+.+.|.++..+++++++..+.+++.++.+++++|||+|+++|++....|++.+
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            44567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      -+.++|||+++.++|+.+..|+........+    ++.+++++||.|+.+.  +++...+...|++... ..+.++|+++
T Consensus        83 AGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~----nIvviL~GnKkDL~~~--R~VtflEAs~FaqEne-l~flETSa~T  155 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALTNWLTDARTLASP----NIVVILCGNKKDLDPE--REVTFLEASRFAQENE-LMFLETSALT  155 (214)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHhhCCC----cEEEEEeCChhhcChh--hhhhHHHHHhhhcccc-eeeeeecccc
Confidence            9999999999999999999999999887766    8899999999999887  8999999999999887 7999999999


Q ss_pred             CCChHHHHHHHHHHHHhcccccccCCC
Q 028305          166 DCNIDEAFLCVAEIALKNEHKDIYYQP  192 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~~~~~~~~  192 (210)
                      |+|++|.|-...+.++...+.++..+.
T Consensus       156 GeNVEEaFl~c~~tIl~kIE~GElDPe  182 (214)
T KOG0086|consen  156 GENVEEAFLKCARTILNKIESGELDPE  182 (214)
T ss_pred             cccHHHHHHHHHHHHHHHHhhcCCCHH
Confidence            999999999999999988887766443

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=3.3e-36  Score=212.11  Aligned_cols=168  Identities=23%  Similarity=0.460  Sum_probs=148.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...+||+++|++|+|||||+++|..+.+...+.|+.+..+ ...+.+++..+.+.+|||+|++.+..+...+++++|++
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~   80 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   80 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEE
Confidence            45688999999999999999999999999888888887655 45677889999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCc
Q 028305           89 VLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      |+|||++++.+|+.+ ..|+..+.....     +.|++||+||+|+.+.          ..+.+..+++.++++..+...
T Consensus        81 ilvyDit~~~Sf~~~~~~w~~~i~~~~~-----~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~  155 (182)
T cd04172          81 LICFDISRPETLDSVLKKWKGEIQEFCP-----NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAAT  155 (182)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-----CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCE
Confidence            999999999999997 789988877643     6899999999998642          124688899999999998668


Q ss_pred             EEEecCCCCCC-hHHHHHHHHHHHHh
Q 028305          158 YFETSAKEDCN-IDEAFLCVAEIALK  182 (210)
Q Consensus       158 ~~~~Sa~~~~~-v~~~~~~l~~~~~~  182 (210)
                      |+++||++|.| |+++|..+++.++.
T Consensus       156 ~~E~SAk~~~n~v~~~F~~~~~~~~~  181 (182)
T cd04172         156 YIECSALQSENSVRDIFHVATLACVN  181 (182)
T ss_pred             EEECCcCCCCCCHHHHHHHHHHHHhc
Confidence            99999999998 99999999997653

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

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=6.9e-36  Score=216.42  Aligned_cols=174  Identities=37%  Similarity=0.648  Sum_probs=153.4

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG   84 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   84 (210)
                      .....+..+||+++|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+...+..+++.
T Consensus         5 ~~~~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~   84 (216)
T PLN03110          5 VDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRG   84 (216)
T ss_pred             cccccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCC
Confidence            34445678999999999999999999999998887788888888888888888989999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      ++++++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||+
T Consensus        85 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~----~~piiiv~nK~Dl~~~--~~~~~~~~~~l~~~~~-~~~~e~SA~  157 (216)
T PLN03110         85 AVGALLVYDITKRQTFDNVQRWLRELRDHADS----NIVIMMAGNKSDLNHL--RSVAEEDGQALAEKEG-LSFLETSAL  157 (216)
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHHHHHhCCC----CCeEEEEEEChhcccc--cCCCHHHHHHHHHHcC-CEEEEEeCC
Confidence            99999999999999999999999888766432    7899999999999654  5566777888887776 899999999


Q ss_pred             CCCChHHHHHHHHHHHHhccc
Q 028305          165 EDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +|.|++++|++++..+.+...
T Consensus       158 ~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        158 EATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             CCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999877543

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=6.3e-36  Score=209.46  Aligned_cols=163  Identities=31%  Similarity=0.569  Sum_probs=143.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++..+.|...+.++.+..+ ...+.+++..+++.+|||+|++++..+...+++++|++|+||
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            6899999999999999999999999888888887665 455678889999999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--------CcccchHHHHHHHHHcCCCcEEEecC
Q 028305           93 DVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--------SRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        93 d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      |++++.+|+.+ ..|+..+.....     ++|+++||||+|+.+..        .+.+..+++..+++..+...++++||
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~-----~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SA  155 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAP-----NVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSS  155 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCC
Confidence            99999999998 689998876542     68999999999996531        13477889999999888446999999


Q ss_pred             CCCCChHHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~  181 (210)
                      ++|.||+++|+.+++.+.
T Consensus       156 k~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         156 KTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             CcccCHHHHHHHHHHHHh
Confidence            999999999999998763

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,

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.4e-36  Score=197.02  Aligned_cols=170  Identities=38%  Similarity=0.655  Sum_probs=158.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..|||+++|..|+|||+|+++|..+-|++....+++.++..+.+.++++++++++|||+|+++|++++.+|++.++++
T Consensus         4 ykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahal   83 (213)
T KOG0095|consen    4 YKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHAL   83 (213)
T ss_pred             cceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceE
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |++||++...+|+-+..|+.++..+...    ++--|+|+||.|+.+.  ++++...+++|+.... +.++++||++-.|
T Consensus        84 ilvydiscqpsfdclpewlreie~yan~----kvlkilvgnk~d~~dr--revp~qigeefs~~qd-myfletsakea~n  156 (213)
T KOG0095|consen   84 ILVYDISCQPSFDCLPEWLREIEQYANN----KVLKILVGNKIDLADR--REVPQQIGEEFSEAQD-MYFLETSAKEADN  156 (213)
T ss_pred             EEEEecccCcchhhhHHHHHHHHHHhhc----ceEEEeeccccchhhh--hhhhHHHHHHHHHhhh-hhhhhhcccchhh
Confidence            9999999999999999999999998765    6778999999999876  7899999999998866 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++.+|..++-++....+
T Consensus       157 ve~lf~~~a~rli~~ar  173 (213)
T KOG0095|consen  157 VEKLFLDLACRLISEAR  173 (213)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999888766554

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.9e-36  Score=195.71  Aligned_cols=169  Identities=35%  Similarity=0.661  Sum_probs=157.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+|++++|+..+|||||+.++.+..|...+..+.++++..+.+.-....+++++|||.|++.++.++..+++.++++|
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfi   98 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEE
Confidence            56789999999999999999999999999999999999998888877778899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      ++||++|.++|..+..|...+..+...    +.|+|+|+||||+.++  +.++.+.++.+++..| ..++++||+.+.|+
T Consensus        99 LmyDitNeeSf~svqdw~tqIktysw~----naqvilvgnKCDmd~e--Rvis~e~g~~l~~~LG-fefFEtSaK~NinV  171 (193)
T KOG0093|consen   99 LMYDITNEESFNSVQDWITQIKTYSWD----NAQVILVGNKCDMDSE--RVISHERGRQLADQLG-FEFFETSAKENINV  171 (193)
T ss_pred             EEEecCCHHHHHHHHHHHHHheeeecc----CceEEEEecccCCccc--eeeeHHHHHHHHHHhC-hHHhhhcccccccH
Confidence            999999999999999999999777554    8899999999999877  9999999999999999 89999999999999


Q ss_pred             HHHHHHHHHHHHhccc
Q 028305          170 DEAFLCVAEIALKNEH  185 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~  185 (210)
                      +.+|+.++..+-+...
T Consensus       172 k~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  172 KQVFERLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999998876543

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=3.2e-35  Score=210.07  Aligned_cols=190  Identities=34%  Similarity=0.583  Sum_probs=156.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+|+|++|+|||||+++|+++.+.. .+.++.+..+....+.+++..+.+.+||++|++.+......+++.+|++++|
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            489999999999999999999988874 5777777777777888889889999999999999988888889999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--CcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--SRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      ||++++.+++.+..|+..+.....     ++|+++|+||+|+.+..  .+.+..+++..++...+ .+++++||++|.|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~gv  154 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEE-----HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIK-AQHFETSSKTGQNV  154 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCC-----CCCEEEEEEcccccccccccCccCHHHHHHHHHHcC-CeEEEEeCCCCCCH
Confidence            999999999999889888865422     68999999999986432  23445567777777776 78999999999999


Q ss_pred             HHHHHHHHHHHHhcccccccCCCCCcceeccccccccccCC
Q 028305          170 DEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      +++|+++.+.+.+....+.... ........+.++.++| |
T Consensus       155 ~~l~~~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~  193 (193)
T cd04118         155 DELFQKVAEDFVSRANNQMNTE-KGVDLGQKKNSYFYSC-C  193 (193)
T ss_pred             HHHHHHHHHHHHHhcccccCCC-CccccCCcCCCCCCCC-C
Confidence            9999999999988765543332 3333444566788999 7

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=1.8e-35  Score=207.96  Aligned_cols=164  Identities=23%  Similarity=0.453  Sum_probs=144.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+..+...+++.+|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            37999999999999999999999999888888887665 45677888999999999999999999999999999999999


Q ss_pred             EECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCcEEE
Q 028305           92 YDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        92 ~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ||++++++|+.+ ..|+..+.....     ++|+++|+||+|+.+.          ..+.+..+++.++++..+...|++
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~-----~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E  154 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCP-----NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLE  154 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCC-----CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEE
Confidence            999999999996 789988877643     6899999999999642          124578889999999998558999


Q ss_pred             ecCCCCCC-hHHHHHHHHHHHH
Q 028305          161 TSAKEDCN-IDEAFLCVAEIAL  181 (210)
Q Consensus       161 ~Sa~~~~~-v~~~~~~l~~~~~  181 (210)
                      +||++|.| ++++|..+++.++
T Consensus       155 ~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         155 CSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CccCcCCcCHHHHHHHHHHHHh
Confidence            99999995 9999999999765

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.

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=8.2e-36  Score=212.38  Aligned_cols=188  Identities=29%  Similarity=0.506  Sum_probs=151.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|.+|+|||||+++|..+.+...+.++.+..+ .....+++..+.+.+|||+|++++...+..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            589999999999999999999888877777776544 3455678888899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHH
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ++++.+++.+..|+..+...... ...++|+++|+||+|+...  +.+..++...+++..+ ..++++||++|.|++++|
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilvgNK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~SAk~~~~v~~l~  155 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDE-SAADVPIMIVGNKCDKVYE--REVSTEEGAALARRLG-CEFIEASAKTNVNVERAF  155 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcc-cCCCCCEEEEEEChhcccc--CccCHHHHHHHHHHhC-CEEEEecCCCCCCHHHHH
Confidence            99999999999999888765431 1237899999999999654  4566667778888777 789999999999999999


Q ss_pred             HHHHHHHHhcccccccCCCCCcceeccccccccccCC
Q 028305          174 LCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       174 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      +++++.+.+.+....  ++...+  ..++.|+.+|||
T Consensus       156 ~~l~~~l~~~~~~~~--~~~~~~--~~~~~~~~~~~~  188 (190)
T cd04144         156 YTLVRALRQQRQGGQ--GPKGGP--TKKKEKKKRKCV  188 (190)
T ss_pred             HHHHHHHHHhhcccC--CCcCCC--CCcccccccCce
Confidence            999998876655432  333333  345556666635

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.

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.2e-36  Score=199.99  Aligned_cols=174  Identities=34%  Similarity=0.628  Sum_probs=158.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ...|+++|+|+.-+|||+|++.|..+.++.-.+|+++.++....+.. .+..+++++|||+|+++|++++.+|++++-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            36799999999999999999999999999999999999998777765 46679999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++|.++|+.+..|..+...+..  ...++-+.+|++|+|+.+.  +++..++++.++...+ +.++++|+++|.|
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q--~P~k~VFlLVGhKsDL~Sq--RqVt~EEaEklAa~hg-M~FVETSak~g~N  160 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQ--GPDKVVFLLVGHKSDLQSQ--RQVTAEEAEKLAASHG-MAFVETSAKNGCN  160 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcC--CCCeeEEEEeccccchhhh--ccccHHHHHHHHHhcC-ceEEEecccCCCc
Confidence            999999999999999999999887665  2225667899999999977  9999999999999999 9999999999999


Q ss_pred             hHHHHHHHHHHHHhcccccc
Q 028305          169 IDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~~  188 (210)
                      |+++|.-|.+.+.....+++
T Consensus       161 VeEAF~mlaqeIf~~i~qGe  180 (213)
T KOG0091|consen  161 VEEAFDMLAQEIFQAIQQGE  180 (213)
T ss_pred             HHHHHHHHHHHHHHHHhcCc
Confidence            99999999999988776633

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=2.7e-35  Score=205.60  Aligned_cols=164  Identities=35%  Similarity=0.666  Sum_probs=146.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|..+.+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++++|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999999998888878888788777778888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+......    +.|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|+++
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i~e  154 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNP----NTVIFLIGNKADLEAQ--RDVTYEEAKQFADENG-LLFLECSAKTGENVED  154 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECcccccc--cCcCHHHHHHHHHHcC-CEEEEEECCCCCCHHH
Confidence            9999999999999999888665432    6799999999999765  5566778888888776 8999999999999999


Q ss_pred             HHHHHHHHHHh
Q 028305          172 AFLCVAEIALK  182 (210)
Q Consensus       172 ~~~~l~~~~~~  182 (210)
                      +|.++++.+.+
T Consensus       155 ~f~~l~~~~~~  165 (166)
T cd04122         155 AFLETAKKIYQ  165 (166)
T ss_pred             HHHHHHHHHhh
Confidence            99999988764

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=1.5e-35  Score=213.70  Aligned_cols=188  Identities=34%  Similarity=0.550  Sum_probs=150.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|.+|+|||||+++|..+.+.. +.++.+.++.....    ..+.+.+|||+|++.+..+...+++.+|++|+||
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            589999999999999999999998864 46666655544332    4578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-----------------CCcccchHHHHHHHHHcCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG-----------------SSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-----------------~~~~~~~~~~~~~~~~~~~  155 (210)
                      |++++++|+.+..|+..+.....    .++|+++|+||+|+.+.                 ..+.+..+++..+++..+.
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~----~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~  151 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTAN----EDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINK  151 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcC----CCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCc
Confidence            99999999999988888766432    26899999999999651                 1367888999999988763


Q ss_pred             -------------CcEEEecCCCCCChHHHHHHHHHHHHhcccccccCCC--CCcceeccccccccccCC
Q 028305          156 -------------IPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP--QGISETVSEVEQRGGCAC  210 (210)
Q Consensus       156 -------------~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~c~c  210 (210)
                                   .+|+++||++|.||+++|..+++.++....++....+  +.-....+-+.+|++| |
T Consensus       152 ~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  220 (220)
T cd04126         152 YKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANRTQGTVNLPNPKRSKSKC-C  220 (220)
T ss_pred             cccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhccccCCCcccCCCCC-C
Confidence                         5799999999999999999999988765554433222  2222334556678999 7

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=3.6e-35  Score=209.07  Aligned_cols=166  Identities=25%  Similarity=0.502  Sum_probs=143.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+++|+.|+|||||++++..+.|...+.++.+..+ ...+.+++..+.+.+|||+|++.+..++..+++++|++|+
T Consensus         2 ~~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~il   80 (191)
T cd01875           2 QSIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFII   80 (191)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEE
Confidence            358999999999999999999999999888888887655 3456678889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCCCcEE
Q 028305           91 VYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        91 v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      |||++++.+|+.+. .|...+.....     ++|+++|+||.|+.+...          +.+..+++..+++..+...++
T Consensus        81 vydit~~~Sf~~~~~~w~~~i~~~~~-----~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~  155 (191)
T cd01875          81 CFSIASPSSYENVRHKWHPEVCHHCP-----NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYL  155 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEE
Confidence            99999999999996 57777765432     789999999999965421          235667888899888867899


Q ss_pred             EecCCCCCChHHHHHHHHHHHHh
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++||++|.|++++|+++++.+..
T Consensus       156 e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         156 ECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             EeCCCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999998854

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

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=4.3e-35  Score=212.37  Aligned_cols=167  Identities=34%  Similarity=0.506  Sum_probs=147.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCC-eEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++....+.+++ ..+.+.+|||+|++.+..+...+++.+|++|+|
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            5899999999999999999999999888889999888877777754 578999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++++++.+..|+..+.+..... ..++|+++|+||+|+.+.  +.+..++...+++..+ .+++++||++|.|+++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~-~~~~piilVgNK~DL~~~--~~v~~~~~~~~~~~~~-~~~~~iSAktg~gv~~  156 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSS-ETQPLVVLVGNKTDLEHN--RTVKDDKHARFAQANG-MESCLVSAKTGDRVNL  156 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcccc-CCCceEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEECCCCCCHHH
Confidence            99999999999999999988764321 136789999999999754  5677788888888877 7899999999999999


Q ss_pred             HHHHHHHHHHhc
Q 028305          172 AFLCVAEIALKN  183 (210)
Q Consensus       172 ~~~~l~~~~~~~  183 (210)
                      +|++++..+...
T Consensus       157 lf~~l~~~l~~~  168 (215)
T cd04109         157 LFQQLAAELLGV  168 (215)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998865

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=1.1e-34  Score=210.45  Aligned_cols=171  Identities=20%  Similarity=0.404  Sum_probs=149.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....+||+++|+.|+|||||+++|..+.|...+.++.+.++. ..+.+++..+.+.+|||+|++.+..+...+++++|++
T Consensus        10 ~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~v   88 (232)
T cd04174          10 LVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV   88 (232)
T ss_pred             ceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEE
Confidence            346899999999999999999999999999888899876664 4578889999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCc
Q 028305           89 VLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      |+|||++++.+|+.+ ..|+..+.....     +.|+++|+||+|+.+.          ..+.+..+++.++++..+...
T Consensus        89 IlVyDit~~~Sf~~~~~~w~~~i~~~~~-----~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~  163 (232)
T cd04174          89 LLCFDISRPETVDSALKKWKAEIMDYCP-----STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEV  163 (232)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCE
Confidence            999999999999984 789998876543     6799999999998642          125678889999999998447


Q ss_pred             EEEecCCCCC-ChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDC-NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~-~v~~~~~~l~~~~~~~~~  185 (210)
                      |++|||++|. |++++|..++..+++...
T Consensus       164 ~~EtSAktg~~~V~e~F~~~~~~~~~~~~  192 (232)
T cd04174         164 YLECSAFTSEKSIHSIFRSASLLCLNKLS  192 (232)
T ss_pred             EEEccCCcCCcCHHHHHHHHHHHHHHhcc
Confidence            9999999998 899999999999887533

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=8.8e-35  Score=203.18  Aligned_cols=165  Identities=41%  Similarity=0.727  Sum_probs=146.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||++|++.+......+++++|++++
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            57999999999999999999999999988888888888877778888888999999999999988888899999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||+++++++..+..|+..+.....    .++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  154 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHAS----EDVERMLVGNKCDMEEK--RVVSKEEGEALADEYG-IKFLETSAKANINVE  154 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCC----CCCcEEEEEECcccccc--cCCCHHHHHHHHHHcC-CEEEEEeCCCCCCHH
Confidence            9999999999999999998877543    27899999999999764  4556677788888777 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|+++.+++..
T Consensus       155 ~~~~~i~~~~~~  166 (167)
T cd01867         155 EAFFTLAKDIKK  166 (167)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=8.6e-35  Score=203.86  Aligned_cols=167  Identities=27%  Similarity=0.479  Sum_probs=145.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|.+|+|||||++++..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++++..++..+++.+|++|+|
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            47999999999999999999999999877777776545 44567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+|+.+..|+..+.....   ..++|+++|+||+|+.+.  +.+..++...+++..+ .+++++||++|.|+++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~---~~~~piilvgNK~Dl~~~--~~v~~~~~~~~a~~~~-~~~~e~Sa~~~~~v~~  154 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRL---TEDIPLVLVGNKVDLESQ--RQVTTEEGRNLAREFN-CPFFETSAALRHYIDD  154 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcC---CCCCCEEEEEEChhhhhc--CccCHHHHHHHHHHhC-CEEEEEecCCCCCHHH
Confidence            999999999999988887766432   127899999999999754  5677788888888877 7999999999999999


Q ss_pred             HHHHHHHHHHhccc
Q 028305          172 AFLCVAEIALKNEH  185 (210)
Q Consensus       172 ~~~~l~~~~~~~~~  185 (210)
                      +|++|++.+.+..+
T Consensus       155 ~f~~l~~~~~~~~~  168 (172)
T cd04141         155 AFHGLVREIRRKES  168 (172)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887554

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=6.5e-35  Score=204.95  Aligned_cols=163  Identities=26%  Similarity=0.461  Sum_probs=140.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|..+.|...+.|+.+..+. ..+.+++..+.+.+|||+|++++...+..+++.+|++|+|
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            479999999999999999999999998788888876664 4566788889999999999999998888899999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEE
Q 028305           92 YDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        92 ~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ||++++++++.+. .|...+.....     ++|+++|+||+|+.+..          .+.+..+++..+++..+...+++
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~~-----~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e  154 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHCP-----KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVE  154 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEE
Confidence            9999999999996 58777765432     68999999999986531          14567788888888887678999


Q ss_pred             ecCCCCCChHHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +||++|.|++++|+.++.++
T Consensus       155 ~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         155 CSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             ecCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999865

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=7.5e-35  Score=207.14  Aligned_cols=182  Identities=31%  Similarity=0.528  Sum_probs=150.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+|+|++|+|||||+++|.++.+...+.++.+.++... +... +..+.+.+|||+|++++......+++.+|++++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~-i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTN-IQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEE-EEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            4899999999999999999999999888878877665443 4444 6778999999999999988888899999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--CcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           92 YDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--SRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        92 ~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ||++++.+|+.+. .|+..+.....     ++|+++|+||+|+....  .+.+..++...++...+..+++++||++|.|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~  154 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFCP-----GTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMEN  154 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCC
Confidence            9999999999986 47776654422     78999999999986532  2345677888888888844899999999999


Q ss_pred             hHHHHHHHHHHHHhcccccccCCCCCcceeccccccccccCC
Q 028305          169 IDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      ++++|..+++.++....+.          ..++..+++.|+|
T Consensus       155 v~~~f~~l~~~~~~~~~~~----------~~~~~~~~~~c~~  186 (187)
T cd04132         155 VEEVFDTAIEEALKKEGKA----------IFKKKKKKRKCVV  186 (187)
T ss_pred             HHHHHHHHHHHHHhhhhhh----------hhccCCCCccccc
Confidence            9999999999999887644          3456677777855

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.

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.6e-34  Score=208.42  Aligned_cols=171  Identities=33%  Similarity=0.620  Sum_probs=149.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      .+||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+ ++..+.+.+|||+|++.+......+++.+|++++
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            589999999999999999999999988777888888887777766 4667899999999999999888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++++++.+..|+..+......   ..+|+++|+||+|+.+.  ..+..++...+++..+ ..++++||++|.|++
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~---~~~~iilvgNK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~g~~v~  155 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQP---HRPVFILVGHKCDLESQ--RQVTREEAEKLAKDLG-MKYIETSARTGDNVE  155 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCC---CCCeEEEEEEccccccc--cccCHHHHHHHHHHhC-CEEEEEeCCCCCCHH
Confidence            99999999999999999988765432   25789999999999764  5667778888888887 899999999999999


Q ss_pred             HHHHHHHHHHHhcccccc
Q 028305          171 EAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~~~~  188 (210)
                      ++|++|++.+++..+...
T Consensus       156 e~f~~l~~~~~~~~~~~~  173 (211)
T cd04111         156 EAFELLTQEIYERIKRGE  173 (211)
T ss_pred             HHHHHHHHHHHHHhhcCC
Confidence            999999999988766554

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.

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=2.1e-34  Score=207.89  Aligned_cols=170  Identities=36%  Similarity=0.645  Sum_probs=149.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....+||+|+|++|+|||||+++|....+...+.++.+.++....+.+++..+.+.+|||+|++.+...+..+++.+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            45679999999999999999999999988877778888888777888888889999999999999988888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++||+++.|
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~----~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~  155 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANA----NMTIMLIGNKCDLAHR--RAVSTEEGEQFAKEHG-LIFMEASAKTAQN  155 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECccCccc--cCCCHHHHHHHHHHcC-CEEEEEeCCCCCC
Confidence            9999999999999999998887665432    7899999999999754  4567788888888877 7999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|.++++.+++...
T Consensus       156 v~e~f~~l~~~~~~~~~  172 (210)
T PLN03108        156 VEEAFIKTAAKIYKKIQ  172 (210)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            99999999999987644

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=9.4e-35  Score=206.77  Aligned_cols=171  Identities=34%  Similarity=0.593  Sum_probs=146.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|++|+|||||++++..+.+...+.++.+..+ ...+.+++..+.+.+|||||++++..++..+++.+|+++
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~ii   81 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFL   81 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEE
Confidence            3469999999999999999999999988777777776555 566778888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++++++.+..|+..+.+...   ..++|+++|+||+|+.+.  +.+..++...+++..+ .+++++||++|.|+
T Consensus        82 lv~D~s~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~~--~~i~~~~~~~~~~~~~-~~~~e~Sak~~~gi  155 (189)
T PTZ00369         82 CVYSITSRSSFEEIASFREQILRVKD---KDRVPMILVGNKCDLDSE--RQVSTGEGQELAKSFG-IPFLETSAKQRVNV  155 (189)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEECcccccc--cccCHHHHHHHHHHhC-CEEEEeeCCCCCCH
Confidence            99999999999999999998876532   227899999999998654  4455667777777766 78999999999999


Q ss_pred             HHHHHHHHHHHHhccccc
Q 028305          170 DEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~  187 (210)
                      +++|++|++.+.+..+.+
T Consensus       156 ~~~~~~l~~~l~~~~~~~  173 (189)
T PTZ00369        156 DEAFYELVREIRKYLKED  173 (189)
T ss_pred             HHHHHHHHHHHHHHhhcc
Confidence            999999999998775544

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=2.4e-34  Score=201.55  Aligned_cols=168  Identities=53%  Similarity=0.933  Sum_probs=148.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...+||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||++++..++..+++.+|++
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            45679999999999999999999999998877778888887777888889999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++++++.+..|...+..........++|+++|+||+|+..   +....+++.++++..+..+++++||++|.|
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~  158 (170)
T cd04116          82 LLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE---RQVSTEEAQAWCRENGDYPYFETSAKDATN  158 (170)
T ss_pred             EEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc---cccCHHHHHHHHHHCCCCeEEEEECCCCCC
Confidence            99999999999999999999887765443335789999999999863   556778888888888766899999999999


Q ss_pred             hHHHHHHHHHH
Q 028305          169 IDEAFLCVAEI  179 (210)
Q Consensus       169 v~~~~~~l~~~  179 (210)
                      +.++|+.+++.
T Consensus       159 v~~~~~~~~~~  169 (170)
T cd04116         159 VAAAFEEAVRR  169 (170)
T ss_pred             HHHHHHHHHhh
Confidence            99999999865

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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=2e-34  Score=200.13  Aligned_cols=160  Identities=36%  Similarity=0.665  Sum_probs=143.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      ++|+++|++|+|||||++++..+.+...+.++.+.++....+.+++..+.+.+||++|++.+......+++.+|++++||
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            58999999999999999999999998888888888887788888888899999999999999988899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++|+.+..|+..+.....    .++|+++|+||.|+...  +.+..++...+++..+ .+++++||++|.|++++
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~----~~~~iilvgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sa~~~~~v~~~  153 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAP----EGVQKILIGNKADEEQK--RQVGDEQGNKLAKEYG-MDFFETSACTNSNIKES  153 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC----CCCeEEEEEECcccccc--cCCCHHHHHHHHHHcC-CEEEEEeCCCCCCHHHH
Confidence            99999999999999998876542    26899999999999754  5566788888888877 89999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      |.+|+++
T Consensus       154 f~~l~~~  160 (161)
T cd04117         154 FTRLTEL  160 (161)
T ss_pred             HHHHHhh
Confidence            9999865

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=2.7e-34  Score=208.34  Aligned_cols=167  Identities=27%  Similarity=0.596  Sum_probs=145.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...+||+++|++|+|||||+++++.+.+...+.++.+.++....+..++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        10 ~~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   89 (219)
T PLN03071         10 DYPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCA   89 (219)
T ss_pred             CCCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEE
Confidence            47889999999999999999999999999888888988888877777788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |+|||++++.+++.+..|+..+.....     ++|+++|+||+|+...   ....+++ .+++..+ ..|+++||++|.|
T Consensus        90 ilvfD~~~~~s~~~i~~w~~~i~~~~~-----~~piilvgNK~Dl~~~---~v~~~~~-~~~~~~~-~~~~e~SAk~~~~  159 (219)
T PLN03071         90 IIMFDVTARLTYKNVPTWHRDLCRVCE-----NIPIVLCGNKVDVKNR---QVKAKQV-TFHRKKN-LQYYEISAKSNYN  159 (219)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhCC-----CCcEEEEEEchhhhhc---cCCHHHH-HHHHhcC-CEEEEcCCCCCCC
Confidence            999999999999999999999886542     7899999999999642   2333444 5666555 8899999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|++.+.+..+
T Consensus       160 i~~~f~~l~~~~~~~~~  176 (219)
T PLN03071        160 FEKPFLYLARKLAGDPN  176 (219)
T ss_pred             HHHHHHHHHHHHHcCcc
Confidence            99999999999987643

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=3.6e-34  Score=199.91  Aligned_cols=164  Identities=41%  Similarity=0.745  Sum_probs=145.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||++++.++.+...+.++.+.++....+..++..+.+.+||+||++.+......+++.+|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            58999999999999999999999988877788888788777888888889999999999999998889999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||+++++++..+..|+..+......    +.|+++|+||+|+...  .....++...+++..+ .+++++||++|.|+++
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~----~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~  154 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASE----NVNKLLVGNKCDLTDK--RVVDYSEAQEFADELG-IPFLETSAKNATNVEQ  154 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCC----CCcEEEEEEChhcccc--cCCCHHHHHHHHHHcC-CeEEEEECCCCcCHHH
Confidence            9999999999999999988765422    6899999999998654  4566677888888777 7999999999999999


Q ss_pred             HHHHHHHHHHh
Q 028305          172 AFLCVAEIALK  182 (210)
Q Consensus       172 ~~~~l~~~~~~  182 (210)
                      +|.++++.+.+
T Consensus       155 ~~~~i~~~~~~  165 (166)
T cd01869         155 AFMTMAREIKK  165 (166)
T ss_pred             HHHHHHHHHHh
Confidence            99999988753

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

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=5.9e-34  Score=198.61  Aligned_cols=162  Identities=36%  Similarity=0.683  Sum_probs=141.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+|||+|++.+...+..+++.+|++++||
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            79999999999999999999999988777888877776667777778899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|++++
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~----~~piivv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gv~~l  154 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWD----NAQVILVGNKCDMEDE--RVVSSERGRQLADQLG-FEFFEASAKENINVKQV  154 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCC----CCCEEEEEECcccCcc--cccCHHHHHHHHHHcC-CEEEEEECCCCCCHHHH
Confidence            999999999999999988765432    6799999999999754  4455677777777776 78999999999999999


Q ss_pred             HHHHHHHHH
Q 028305          173 FLCVAEIAL  181 (210)
Q Consensus       173 ~~~l~~~~~  181 (210)
                      |++++..+.
T Consensus       155 ~~~l~~~~~  163 (165)
T cd01865         155 FERLVDIIC  163 (165)
T ss_pred             HHHHHHHHH
Confidence            999998764

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=5.5e-34  Score=199.43  Aligned_cols=165  Identities=36%  Similarity=0.643  Sum_probs=143.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|+|||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||||++++..++..+++.+|++++|||
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            79999999999999999999999998888999888887888888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHH
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ++++++++.+..|+..+.+...+   ..+|+++|+||.|+.+........+++..+++..+ .+++++||++|.|++++|
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~---~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~e~Sa~~g~~v~~lf  157 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDP---SSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQ-AEYWSVSALSGENVREFF  157 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCC---CCCeEEEEEEChhcCccccccccHHHHHHHHHHcC-CeEEEEECCCCCCHHHHH
Confidence            99999999999999988765332   15689999999998654223344566777777777 789999999999999999


Q ss_pred             HHHHHHHHh
Q 028305          174 LCVAEIALK  182 (210)
Q Consensus       174 ~~l~~~~~~  182 (210)
                      +.|++.+.+
T Consensus       158 ~~l~~~~~~  166 (170)
T cd04108         158 FRVAALTFE  166 (170)
T ss_pred             HHHHHHHHH
Confidence            999998854

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

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=3.8e-34  Score=202.04  Aligned_cols=167  Identities=27%  Similarity=0.449  Sum_probs=143.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|+.|+|||||+++|..+.+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++++|++++||
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            58999999999999999999999998888899988888788888998999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC---CcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS---SRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      |++++.+++.+..|+..+......    .+| ++|+||+|+....   ......++...+++..+ .+++++||++|.|+
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~----~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~-~~~~e~SAk~g~~v  154 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKT----AIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMK-APLIFCSTSHSINV  154 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCC----CCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcC-CEEEEEeCCCCCCH
Confidence            999999999999999988765332    456 6889999995321   11223466777888777 78999999999999


Q ss_pred             HHHHHHHHHHHHhccc
Q 028305          170 DEAFLCVAEIALKNEH  185 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~  185 (210)
                      +++|+++++.+.....
T Consensus       155 ~~lf~~l~~~l~~~~~  170 (182)
T cd04128         155 QKIFKIVLAKAFDLPL  170 (182)
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            9999999999876544

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

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=4.2e-34  Score=202.11  Aligned_cols=167  Identities=40%  Similarity=0.681  Sum_probs=144.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC----------CeEEEEEEEeCCCcccccccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------DKLVTLQIWDTAGQERFQSLGSA   80 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~g~~~~~~~~~~   80 (210)
                      +.+||+++|++|+|||||++++.++.+...+.++.+.++....+...          +..+.+.+|||||++.+...+..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            56999999999999999999999999988888888877766555543          45688999999999999999999


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++++|++++|||+++++++..+..|+..+.....   ..++|+++|+||+|+.+.  +....++...+++..+ +++++
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e  156 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAY---CENPDIVLCGNKADLEDQ--RQVSEEQAKALADKYG-IPYFE  156 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC---CCCCcEEEEEeCccchhc--CccCHHHHHHHHHHcC-CeEEE
Confidence            99999999999999999999999999998876532   126799999999999764  5566778888888887 79999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +||++|.|++++|++|++.++++
T Consensus       157 ~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         157 TSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999988754

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=4.4e-34  Score=199.27  Aligned_cols=163  Identities=40%  Similarity=0.672  Sum_probs=143.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+++|++|+|||||++++..+.+...+.++.+.+.....+..++..+.+.+||+||++.+......+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            56999999999999999999999988887777787777777788888888899999999999998888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+.....    .++|+++|+||+|+...  +....+++..+++..+...++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  155 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGA----SNVVLLLIGNKCDLEEQ--REVLFEEACTLAEKNGMLAVLETSAKESQNVE  155 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCC----CCCcEEEEEECcccccc--cccCHHHHHHHHHHcCCcEEEEEECCCCCCHH
Confidence            9999999999999999999876533    27899999999999754  45666778888888776689999999999999


Q ss_pred             HHHHHHHHH
Q 028305          171 EAFLCVAEI  179 (210)
Q Consensus       171 ~~~~~l~~~  179 (210)
                      ++|+++.+.
T Consensus       156 ~~~~~l~~~  164 (165)
T cd01864         156 EAFLLMATE  164 (165)
T ss_pred             HHHHHHHHh
Confidence            999999875

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=7.2e-34  Score=205.13  Aligned_cols=167  Identities=22%  Similarity=0.467  Sum_probs=143.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+|+|++|+|||||+++|..+.|...+.|+.+..+. ..+.+++..+.+.+|||+|++.+..+...+++.+|++|+||
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            79999999999999999999999999888888876654 56778899999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      |++++++|+.+. .|...+.....     ++|++||+||+|+....          ...+..+++..+++..+...|+++
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~~-----~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~  155 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFCP-----NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVEC  155 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEc
Confidence            999999999985 56555544332     78999999999996531          123677889999999997799999


Q ss_pred             cCCCCCC-hHHHHHHHHHHHHhccc
Q 028305          162 SAKEDCN-IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       162 Sa~~~~~-v~~~~~~l~~~~~~~~~  185 (210)
                      ||+++.+ |+++|..++.+++....
T Consensus       156 SAk~~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         156 SSRSSERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             CCCcCCcCHHHHHHHHHHHHHhccC
Confidence            9999885 99999999999877544

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=7e-34  Score=198.68  Aligned_cols=166  Identities=32%  Similarity=0.620  Sum_probs=145.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|+++.+...+.++.+.++....+..++..+.+.+|||+|++.+...+..+++.+|++|+||
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            58999999999999999999999998888899988888888888888999999999999999888899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCC-CCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADP-GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~-~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      |++++.+++.+..|+..+...... ....++|+++|+||+|+.+.  .....++...+++..+ .+++++||++|.|+++
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~  157 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKH--RAVSEDEGRLWAESKG-FKYFETSACTGEGVNE  157 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccc--cccCHHHHHHHHHHcC-CeEEEEECCCCCCHHH
Confidence            999999999999999999876532 11236899999999999743  4556777777777777 8899999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          172 AFLCVAEIAL  181 (210)
Q Consensus       172 ~~~~l~~~~~  181 (210)
                      +|++|++.++
T Consensus       158 l~~~l~~~l~  167 (168)
T cd04119         158 MFQTLFSSIV  167 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998875

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.

>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=5.4e-34  Score=198.24  Aligned_cols=161  Identities=44%  Similarity=0.753  Sum_probs=150.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+|+|++|+|||||+++|.++.+...+.++.+.+.....+.+++..+.+.+||++|++.+......+++++|++|+|||
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            79999999999999999999999998999998889999999999999999999999999998888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHH
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ++++.+++.+..|+..+......    ++|+++|+||.|+.+.  +.+..++++.+++..+ .+|+++|++++.|+.++|
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~----~~~iivvg~K~D~~~~--~~v~~~~~~~~~~~~~-~~~~e~Sa~~~~~v~~~f  153 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPE----DIPIIVVGNKSDLSDE--REVSVEEAQEFAKELG-VPYFEVSAKNGENVKEIF  153 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTT----TSEEEEEEETTTGGGG--SSSCHHHHHHHHHHTT-SEEEEEBTTTTTTHHHHH
T ss_pred             ccccccccccccccccccccccc----cccceeeecccccccc--ccchhhHHHHHHHHhC-CEEEEEECCCCCCHHHHH
Confidence            99999999999999999888762    6899999999999863  6788889999999999 999999999999999999


Q ss_pred             HHHHHHHH
Q 028305          174 LCVAEIAL  181 (210)
Q Consensus       174 ~~l~~~~~  181 (210)
                      ..+++.++
T Consensus       154 ~~~i~~i~  161 (162)
T PF00071_consen  154 QELIRKIL  161 (162)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999875

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 ....

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=8.5e-34  Score=197.85  Aligned_cols=163  Identities=40%  Similarity=0.732  Sum_probs=145.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+++|++|||||||+++|.++.+...+.++.+.++....+..++..+.+.+||+||+..+..+...+++.++++++
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            46899999999999999999999999887888888888888888888888899999999999998888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+......    ++|+++|+||+|+...  +....++...++...+ ..++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~----~~pi~vv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  154 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADS----NIVIMLVGNKSDLRHL--RAVPTEEAKAFAEKNG-LSFIETSALDGTNVE  154 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECcccccc--ccCCHHHHHHHHHHcC-CEEEEEECCCCCCHH
Confidence            99999999999999999988776542    6899999999999754  5566777888887765 889999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          171 EAFLCVAEIA  180 (210)
Q Consensus       171 ~~~~~l~~~~  180 (210)
                      ++|++++..+
T Consensus       155 ~l~~~l~~~i  164 (165)
T cd01868         155 EAFKQLLTEI  164 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999998875

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=1e-33  Score=198.67  Aligned_cols=161  Identities=27%  Similarity=0.483  Sum_probs=138.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++..+.+...+.++... .....+..++..+.+.+|||+|++.+...+..+++.+|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCccee-eeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            79999999999999999999999998888787754 33455667888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      |++++++|+.+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..+++..+++..+...++++
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~-----~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  155 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCP-----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  155 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEe
Confidence            999999999986 57777765432     78999999999996431          135778888999998886799999


Q ss_pred             cCCCCCChHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~  179 (210)
                      ||++|.|++++|+.+++.
T Consensus       156 Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         156 SALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             cccccCCHHHHHHHHHHh
Confidence            999999999999999864

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=1e-33  Score=197.02  Aligned_cols=161  Identities=38%  Similarity=0.639  Sum_probs=138.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|||||||++++..+.+...+.++.+ +.....+.+++..+.+.+|||||++++..++..+++.+|++++||
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            7999999999999999999999888777777665 444566778888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....++...+++..+ .+++++||++|.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~l  154 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDT---ENVPMVLVGNKCDLEDE--RVVSREEGQALARQWG-CPFYETSAKSKINVDEV  154 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--ceecHHHHHHHHHHcC-CeEEEecCCCCCCHHHH
Confidence            999999999999998888765332   37899999999999653  4556667777777777 89999999999999999


Q ss_pred             HHHHHHHH
Q 028305          173 FLCVAEIA  180 (210)
Q Consensus       173 ~~~l~~~~  180 (210)
                      |+++++.+
T Consensus       155 ~~~l~~~~  162 (163)
T cd04136         155 FADLVRQI  162 (163)
T ss_pred             HHHHHHhc
Confidence            99998764

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.

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=1.8e-33  Score=200.18  Aligned_cols=166  Identities=31%  Similarity=0.528  Sum_probs=140.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|+|||||+++|..+.+...+.++.+..+. ..+..++..+.+.+|||+|++.+..++..+++.+|++|+|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            8999999999999999999999998777777766553 455677888999999999999998888889999999999999


Q ss_pred             CCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCCCcEEEec
Q 028305           94 VNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        94 ~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ++++.+|+.+. .|+..+.....     ++|+++|+||+|+.....          ..+..+++..++...+...++++|
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~~-----~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  155 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHCP-----GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECS  155 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEcc
Confidence            99999999986 58877765432     789999999999965421          124566777888777767899999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |++|.|++++|.++++.+....+
T Consensus       156 Ak~~~~v~e~f~~l~~~~~~~~~  178 (189)
T cd04134         156 AKLNRGVNEAFTEAARVALNVRP  178 (189)
T ss_pred             CCcCCCHHHHHHHHHHHHhcccc
Confidence            99999999999999999986544

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.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.3e-33  Score=195.63  Aligned_cols=161  Identities=31%  Similarity=0.690  Sum_probs=138.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|||||||+++++.+.+...+.++.+.+.....+..++..+.+.+|||+|++.+......++..+|++|+||
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            58999999999999999999988888788888888877777777888899999999999998888888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.++..+..|+..+.+...     ++|+++|+||+|+.+.   ... .+...+++.. ...++++||++|.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-----~~piiiv~nK~Dl~~~---~~~-~~~~~~~~~~-~~~~~e~Sa~~~~~v~~~  150 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCG-----NIPIVLCGNKVDIKDR---KVK-AKQITFHRKK-NLQYYEISAKSNYNFEKP  150 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-----CCcEEEEEEchhcccc---cCC-HHHHHHHHHc-CCEEEEEeCCCCCChHHH
Confidence            99999999999999999987654     7899999999999742   222 2334455544 488999999999999999


Q ss_pred             HHHHHHHHHhc
Q 028305          173 FLCVAEIALKN  183 (210)
Q Consensus       173 ~~~l~~~~~~~  183 (210)
                      |++|++.+.+.
T Consensus       151 f~~l~~~~~~~  161 (166)
T cd00877         151 FLWLARKLLGN  161 (166)
T ss_pred             HHHHHHHHHhc
Confidence            99999998754

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

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=3.1e-33  Score=195.53  Aligned_cols=166  Identities=37%  Similarity=0.668  Sum_probs=146.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|++|+|||||++++.+..+...+.++.+.++....+..++....+.+||++|++++......+++.+|+++
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            35689999999999999999999999888777778778887777888888889999999999998888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+++.+..|+..+.....+    ++|+++|+||.|+.+.  .....++.+.++...+ ..++++||+++.|+
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~pvivv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i  154 (168)
T cd01866          82 LVYDITRRETFNHLTSWLEDARQHSNS----NMTIMLIGNKCDLESR--REVSYEEGEAFAKEHG-LIFMETSAKTASNV  154 (168)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEECcccccc--cCCCHHHHHHHHHHcC-CEEEEEeCCCCCCH
Confidence            999999999999999999988776432    7899999999999754  4566777888888776 88999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 028305          170 DEAFLCVAEIALK  182 (210)
Q Consensus       170 ~~~~~~l~~~~~~  182 (210)
                      +++|.++++.+++
T Consensus       155 ~~~~~~~~~~~~~  167 (168)
T cd01866         155 EEAFINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998764

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

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6e-34  Score=183.35  Aligned_cols=196  Identities=33%  Similarity=0.613  Sum_probs=174.8

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....||.+++|+-|+|||+|++.|....|...-+.+++..+....+.+.+.++++++|||.|+++|+....+|++.+.+
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaag   86 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   86 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccc
Confidence            45678999999999999999999999999998888999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      .++|||++...++..+..|+......-.+    +..+++++||.|+...  +++..++.+.|+...+ .-++++|+++|.
T Consensus        87 almvyditrrstynhlsswl~dar~ltnp----nt~i~lignkadle~q--rdv~yeeak~faeeng-l~fle~saktg~  159 (215)
T KOG0097|consen   87 ALMVYDITRRSTYNHLSSWLTDARNLTNP----NTVIFLIGNKADLESQ--RDVTYEEAKEFAEENG-LMFLEASAKTGQ  159 (215)
T ss_pred             eeEEEEehhhhhhhhHHHHHhhhhccCCC----ceEEEEecchhhhhhc--ccCcHHHHHHHHhhcC-eEEEEecccccC
Confidence            99999999999999999999888766554    6678999999999877  8999999999999999 999999999999


Q ss_pred             ChHHHHHHHHHHHHhccccccc-------------CCCCCcceeccccccccccCC
Q 028305          168 NIDEAFLCVAEIALKNEHKDIY-------------YQPQGISETVSEVEQRGGCAC  210 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~c~c  210 (210)
                      |+++.|-.....++++......             ..|+.-....+...++-+|.|
T Consensus       160 nvedafle~akkiyqniqdgsldlnaaesgvq~k~~~p~~~~l~se~~~~kd~c~c  215 (215)
T KOG0097|consen  160 NVEDAFLETAKKIYQNIQDGSLDLNAAESGVQHKPSQPSRTSLSSEATGAKDQCSC  215 (215)
T ss_pred             cHHHHHHHHHHHHHHhhhcCcccccchhccCcCCCCCCCccccccCCCCccccCCC
Confidence            9999999999999887665433             233334445677788899998

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=3.7e-33  Score=193.81  Aligned_cols=160  Identities=30%  Similarity=0.608  Sum_probs=138.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++..+.+.+.+.++.+.+.......+++..+.+.+|||+|++.+...+..+++.+|++++||
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            58999999999999999999999988777777776776777778888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.+++.+..|+..+.....     ++|+++|+||+|+...     ..++...++...+ .+++++||++|.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~-----~~p~ivv~nK~Dl~~~-----~~~~~~~~~~~~~-~~~~~~Sa~~~~gv~~l  149 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRP-----EIPCIVVANKIDLDPS-----VTQKKFNFAEKHN-LPLYYVSAADGTNVVKL  149 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCC-----CCcEEEEEECccCchh-----HHHHHHHHHHHcC-CeEEEEeCCCCCCHHHH
Confidence            99999999999999998876532     6799999999998532     1234455666555 78999999999999999


Q ss_pred             HHHHHHHHHhc
Q 028305          173 FLCVAEIALKN  183 (210)
Q Consensus       173 ~~~l~~~~~~~  183 (210)
                      |+.+++.++++
T Consensus       150 ~~~l~~~~~~~  160 (161)
T cd04124         150 FQDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHHHhc
Confidence            99999998875

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

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=2.3e-33  Score=195.43  Aligned_cols=163  Identities=35%  Similarity=0.600  Sum_probs=139.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|.+|+|||||++++..+.+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            37999999999999999999998888777777776544 45677788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.  .....++...+++..+ .+++++||++|.|+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~---~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~  153 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKD---TEDVPMILVGNKCDLEDE--RVVGKEQGQNLARQWG-CAFLETSAKAKINVNE  153 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEECCcchhc--cEEcHHHHHHHHHHhC-CEEEEeeCCCCCCHHH
Confidence            999999999999999888876532   237899999999999764  4455566677777777 7999999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          172 AFLCVAEIAL  181 (210)
Q Consensus       172 ~~~~l~~~~~  181 (210)
                      +|.++++.+.
T Consensus       154 ~~~~l~~~l~  163 (164)
T cd04175         154 IFYDLVRQIN  163 (164)
T ss_pred             HHHHHHHHhh
Confidence            9999997654

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=2.5e-33  Score=194.90  Aligned_cols=159  Identities=38%  Similarity=0.725  Sum_probs=139.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC--CeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD--DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +||+++|++|+|||||+++|.++.+...+.++.+.++....+.+.  +..+.+.+|||||++++...+..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            489999999999999999999998887888888888776666666  777899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++++++.+..|+..+.....     ++|+++|+||+|+...  ..+..+++..+++..+ .+++++|+++|.|++
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~-----~~p~iiv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  152 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECG-----DIPMVLVQTKIDLLDQ--AVITNEEAEALAKRLQ-LPLFRTSVKDDFNVT  152 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhcccc--cCCCHHHHHHHHHHcC-CeEEEEECCCCCCHH
Confidence            9999999999999999888866443     7899999999999754  4455677888888877 799999999999999


Q ss_pred             HHHHHHHHH
Q 028305          171 EAFLCVAEI  179 (210)
Q Consensus       171 ~~~~~l~~~  179 (210)
                      ++|++|.+.
T Consensus       153 ~l~~~l~~~  161 (162)
T cd04106         153 ELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHh
Confidence            999999764

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

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=6.8e-33  Score=194.49  Aligned_cols=170  Identities=72%  Similarity=1.140  Sum_probs=148.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|||||||++++.+..+.....++.+.++....+.+.+..+.+.+||+||++.+...+..+++.+|++|++|
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            58999999999999999999999888777778777777777888888899999999999999988999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.+++.+..|...+..........++|+++|+||+|+...  .....++...+.+..+..+++++|+++|.|++++
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  158 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEK--RQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQA  158 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccc--cccCHHHHHHHHHHcCCceEEEEECCCCCCHHHH
Confidence            99999999999889888777665444557899999999999753  4455667777777777689999999999999999


Q ss_pred             HHHHHHHHHhcc
Q 028305          173 FLCVAEIALKNE  184 (210)
Q Consensus       173 ~~~l~~~~~~~~  184 (210)
                      |+++.+++.+..
T Consensus       159 ~~~i~~~~~~~~  170 (172)
T cd01862         159 FETIARKALEQE  170 (172)
T ss_pred             HHHHHHHHHhcc
Confidence            999999998774

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-

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=3.6e-33  Score=193.89  Aligned_cols=160  Identities=41%  Similarity=0.678  Sum_probs=143.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+......+++.+|++++||
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            58999999999999999999999988888888888887778888888899999999999999888889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |+++++++..+..|+..+.....+    ++|+++|+||+|+.+.  .....+++..++...+ ..++++||+++.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~----~~~iivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~~  153 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASP----NIVVILVGNKSDLADQ--REVTFLEASRFAQENG-LLFLETSALTGENVEEA  153 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEEchhcchh--ccCCHHHHHHHHHHcC-CEEEEEECCCCCCHHHH
Confidence            999999999999998888665433    7899999999999763  5567778888888887 89999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      |+++++.
T Consensus       154 ~~~~~~~  160 (161)
T cd04113         154 FLKCARS  160 (161)
T ss_pred             HHHHHHh
Confidence            9999875

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1e-32  Score=192.15  Aligned_cols=163  Identities=50%  Similarity=0.845  Sum_probs=144.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+......+++.+|++++||
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            58999999999999999999999888788888888887788888888889999999999999988899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.+++.+..|+..+..+...    ++|+++|+||+|+...  .....+.+..+++..+ .+++++|+++|.|++++
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~----~~pivvv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~i~~l  153 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADP----NVVIMLVGNKSDLEDQ--RQVSREEAEAFAEEHG-LPFFETSAKTNTNVEEA  153 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEEchhcccc--cCCCHHHHHHHHHHcC-CeEEEEeCCCCCCHHHH
Confidence            999999999999999988776533    7899999999998753  4556677777887776 78999999999999999


Q ss_pred             HHHHHHHHHh
Q 028305          173 FLCVAEIALK  182 (210)
Q Consensus       173 ~~~l~~~~~~  182 (210)
                      |+++.+.+.+
T Consensus       154 ~~~i~~~~~~  163 (164)
T smart00175      154 FEELAREILK  163 (164)
T ss_pred             HHHHHHHHhh
Confidence            9999998764

Rab GTPases are implicated in vesicle trafficking.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=1.1e-32  Score=196.49  Aligned_cols=156  Identities=28%  Similarity=0.656  Sum_probs=137.4

Q ss_pred             EcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCCh
Q 028305           18 LGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ   97 (210)
Q Consensus        18 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~   97 (210)
                      +|++|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++.+|++|+|||++++
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            69999999999999999888888888988888888888888899999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHH
Q 028305           98 KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus        98 ~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  177 (210)
                      .+++.+..|+..+.+...     ++|+++|+||+|+...   .+..+. ..+++..+ +.++++||++|.|+.++|++|+
T Consensus        81 ~S~~~i~~w~~~i~~~~~-----~~piilvgNK~Dl~~~---~v~~~~-~~~~~~~~-~~~~e~SAk~~~~v~~~F~~l~  150 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCE-----NIPIVLCGNKVDVKDR---KVKAKS-ITFHRKKN-LQYYDISAKSNYNFEKPFLWLA  150 (200)
T ss_pred             HHHHHHHHHHHHHHHhCC-----CCCEEEEEECcccccc---cCCHHH-HHHHHHcC-CEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999999987642     7899999999998642   233333 35666655 8999999999999999999999


Q ss_pred             HHHHhc
Q 028305          178 EIALKN  183 (210)
Q Consensus       178 ~~~~~~  183 (210)
                      ..+.+.
T Consensus       151 ~~i~~~  156 (200)
T smart00176      151 RKLIGD  156 (200)
T ss_pred             HHHHhc
Confidence            999775

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=9.1e-33  Score=192.46  Aligned_cols=162  Identities=37%  Similarity=0.640  Sum_probs=138.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+|+|++|||||||+++|++..+...+.++.+. ........++..+.+.+|||||++++...+..+++.+|++++||
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            58999999999999999999998887776666653 33456677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+.+....   .+.|+++|+||+|+...  +....++...+++..+ .+++++||++|.|++++
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~---~~~pii~v~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l  153 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDR---DDVPIVLVGNKCDLESE--RVVSTEEGKELARQWG-CPFLETSAKERVNVDEA  153 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--ceEcHHHHHHHHHHcC-CEEEEeecCCCCCHHHH
Confidence            999999999999998888765432   26799999999999754  4556677777887777 89999999999999999


Q ss_pred             HHHHHHHHH
Q 028305          173 FLCVAEIAL  181 (210)
Q Consensus       173 ~~~l~~~~~  181 (210)
                      |++|++.+.
T Consensus       154 ~~~l~~~~~  162 (164)
T smart00173      154 FYDLVREIR  162 (164)
T ss_pred             HHHHHHHHh
Confidence            999998764

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=7e-33  Score=191.35  Aligned_cols=157  Identities=24%  Similarity=0.422  Sum_probs=130.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|+.|+|||||+++++.+.+...+.++ ...+ ...+.+++..+.+.+|||+|++.     ..+++.+|++++||
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            48999999999999999999988887655443 2333 46678888889999999999864     34567899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.+|+++..|+..+.....   ..++|+++|+||.|+.....+.+..+++.++++..+...|++|||++|.|++++
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~---~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~  150 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRN---ISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERV  150 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHH
Confidence            99999999999999998876542   126899999999998644447788888888988776689999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      |..+++.
T Consensus       151 f~~~~~~  157 (158)
T cd04103         151 FQEAAQK  157 (158)
T ss_pred             HHHHHhh
Confidence            9999864

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.

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=9.2e-33  Score=197.23  Aligned_cols=171  Identities=24%  Similarity=0.363  Sum_probs=138.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------ccccccC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSAFYRG   84 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~~   84 (210)
                      +||+|+|.+|+|||||+++|.++.+...+.|+.+.+.....+..++..+.+.+|||||...+...        ....++.
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            58999999999999999999999998878888877766667778888899999999996543211        2234688


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++|+|||++++++++.+..|+..+...... ...++|+++|+||+|+...  +....+++..++.+...++++++||+
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~-~~~~~piiivgNK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~e~Sak  157 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPA-GNKEPPIVVVGNKRDQQRH--RFAPRHVLSVLVRKSWKCGYLECSAK  157 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhccc-CCCCCCEEEEEECcccccc--ccccHHHHHHHHHHhcCCcEEEecCC
Confidence            99999999999999999999998888765421 1237899999999999654  44555666666554444899999999


Q ss_pred             CCCChHHHHHHHHHHHHhcccc
Q 028305          165 EDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      +|.|++++|+.++..++.+-+.
T Consensus       158 ~g~~v~~lf~~i~~~~~~~~~~  179 (198)
T cd04142         158 YNWHILLLFKELLISATTRGRS  179 (198)
T ss_pred             CCCCHHHHHHHHHHHhhccCCC
Confidence            9999999999999998877653

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=1.4e-32  Score=190.93  Aligned_cols=161  Identities=34%  Similarity=0.609  Sum_probs=137.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|.++.+...+.++.+..+ .....+++..+.+.+|||+|++++..++..+++.+|++++|
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            37999999999999999999999888777777765444 55567788888899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+.+....   .++|+++|+||+|+.+   +....++...++...+ .+++++||++|.|+++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~---~~~piivv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~  152 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDS---DDVPMVLVGNKCDLAA---RTVSSRQGQDLAKSYG-IPYIETSAKTRQGVEE  152 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECccccc---ceecHHHHHHHHHHhC-CeEEEecCCCCCCHHH
Confidence            9999999999999998888765422   2789999999999975   3455667777777766 7899999999999999


Q ss_pred             HHHHHHHHH
Q 028305          172 AFLCVAEIA  180 (210)
Q Consensus       172 ~~~~l~~~~  180 (210)
                      +|+++++.+
T Consensus       153 l~~~l~~~~  161 (162)
T cd04138         153 AFYTLVREI  161 (162)
T ss_pred             HHHHHHHHh
Confidence            999998754

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.

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=1.1e-32  Score=191.92  Aligned_cols=162  Identities=33%  Similarity=0.576  Sum_probs=137.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|.+|+|||||++++..+.+...+.++.+ +.....+.+++..+.+.+|||+|++.+..++..+++++|++++|
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            37999999999999999999999988877666654 45556777788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.++..+..|+..+......   .++|+++|+||+|+...  .....++...++...+ .+++++||++|.|+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~---~~~piviv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~  153 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGY---EKVPIILVGNKVDLESE--REVSSAEGRALAEEWG-CPFMETSAKSKTMVNE  153 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECccchhc--CccCHHHHHHHHHHhC-CEEEEecCCCCCCHHH
Confidence            9999999999999998888765321   27899999999998653  3445556677777666 7899999999999999


Q ss_pred             HHHHHHHHH
Q 028305          172 AFLCVAEIA  180 (210)
Q Consensus       172 ~~~~l~~~~  180 (210)
                      +|.++++.+
T Consensus       154 l~~~l~~~l  162 (163)
T cd04176         154 LFAEIVRQM  162 (163)
T ss_pred             HHHHHHHhc
Confidence            999998754

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=1.9e-32  Score=191.87  Aligned_cols=163  Identities=38%  Similarity=0.686  Sum_probs=142.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-ccccccccCCcEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-SLGSAFYRGADCCVL   90 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~vi~   90 (210)
                      .++|+++|++|+|||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++++. .+...+++++|++++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            5899999999999999999999998887788888888888888888988999999999998886 467888999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC---CC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE---DC  167 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~  167 (210)
                      |||++++.++..+..|...+......   .++|+++|+||+|+...  +.+..++...++.... .+++++||++   +.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~~~~~~  155 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLP---NEVPRILVGNKCDLREQ--IQVPTDLAQRFADAHS-MPLFETSAKDPSEND  155 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCC---CCCCEEEEEECccchhh--cCCCHHHHHHHHHHcC-CcEEEEeccCCcCCC
Confidence            99999999999999999888765432   27899999999998754  5566777888888776 8999999999   99


Q ss_pred             ChHHHHHHHHHHH
Q 028305          168 NIDEAFLCVAEIA  180 (210)
Q Consensus       168 ~v~~~~~~l~~~~  180 (210)
                      |++++|..+++.+
T Consensus       156 ~i~~~f~~l~~~~  168 (170)
T cd04115         156 HVEAIFMTLAHKL  168 (170)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998765

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

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=4.3e-32  Score=196.25  Aligned_cols=169  Identities=36%  Similarity=0.624  Sum_probs=141.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....+||+|+|++|+|||||+++|.+..+. .+.++.+.++....+..++..+.+.+|||||++.+..++..+++.+|++
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~   89 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGI   89 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            456899999999999999999999988774 5567777777777777888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHH-HHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           89 VLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      ++|||++++++|..+.. |...+.....   ..+.|+++|+||+|+...  +....++...++...+ ..++++||++|.
T Consensus        90 vlv~D~~~~~sf~~~~~~~~~~~~~~~~---~~~~~~ilv~NK~Dl~~~--~~i~~~~~~~~~~~~~-~~~~e~SAk~~~  163 (211)
T PLN03118         90 ILVYDVTRRETFTNLSDVWGKEVELYST---NQDCVKMLVGNKVDRESE--RDVSREEGMALAKEHG-CLFLECSAKTRE  163 (211)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEECcccccc--CccCHHHHHHHHHHcC-CEEEEEeCCCCC
Confidence            99999999999999876 4444433221   126799999999999754  4455667777777776 789999999999


Q ss_pred             ChHHHHHHHHHHHHhcc
Q 028305          168 NIDEAFLCVAEIALKNE  184 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~  184 (210)
                      |++++|++|.+.+....
T Consensus       164 ~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        164 NVEQCFEELALKIMEVP  180 (211)
T ss_pred             CHHHHHHHHHHHHHhhh
Confidence            99999999999997764

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=1.7e-32  Score=190.45  Aligned_cols=160  Identities=38%  Similarity=0.661  Sum_probs=141.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|||||||+++|++..+...+.++.+.++....+..++..+.+.+|||||+..+......+++.+|++++||
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            48999999999999999999999988888888888888888888888889999999999999988899999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+......    +.|+++|+||+|+.+.  .....++...++...+ ..++++|++++.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~l  153 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGN----DVIIVLVGNKTDLSDK--RQVSTEEGEKKAKELN-AMFIETSAKAGHNVKEL  153 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCC----CCEEEEEEEChhcccc--CccCHHHHHHHHHHhC-CEEEEEeCCCCCCHHHH
Confidence            999999999999999888654332    6899999999999643  5566677777777776 88999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      |+++.+.
T Consensus       154 ~~~i~~~  160 (161)
T cd01861         154 FRKIASA  160 (161)
T ss_pred             HHHHHHh
Confidence            9999875

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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=3e-32  Score=189.79  Aligned_cols=162  Identities=33%  Similarity=0.597  Sum_probs=137.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++++++.+...+.++.+..+ .....+++..+.+.+|||||++++..+...+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            58999999999999999999998887766666665444 44556788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+.+....   .++|+++|+||+|+...  .....++...+++..+ .+++++||++|.|+++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~---~~~piiiv~NK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~  154 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDR---DEFPMILVGNKADLEHQ--RKVSREEGQELARKLK-IPYIETSAKDRLNVDK  154 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCC---CCCCEEEEeeCcccccc--ceecHHHHHHHHHHcC-CcEEEeeCCCCCCHHH
Confidence            9999999999999999888765321   26899999999999754  4455667778887777 7999999999999999


Q ss_pred             HHHHHHHHH
Q 028305          172 AFLCVAEIA  180 (210)
Q Consensus       172 ~~~~l~~~~  180 (210)
                      +|++|+..+
T Consensus       155 l~~~l~~~~  163 (164)
T cd04145         155 AFHDLVRVI  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999998754

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=3.3e-32  Score=189.80  Aligned_cols=162  Identities=28%  Similarity=0.459  Sum_probs=135.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++.++.+...+.++.+..+ ......+...+.+.+|||+|++.+..+...+++.+|++++||
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            7999999999999999999999988777777665444 445556677789999999999999888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+...... ...++|+++|+||+|+.+.  +....++...++...+ ..++++||++|.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~SA~~g~~v~~~  156 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGN-NIEKIPIMLVGNKCDESHK--REVSSNEGAACATEWN-CAFMETSAKTNHNVQEL  156 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcC-CCCCCCEEEEEECcccccc--CeecHHHHHHHHHHhC-CcEEEeecCCCCCHHHH
Confidence            999999999999998877665322 1237899999999999653  4566667777777766 78999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      |++|+..
T Consensus       157 f~~l~~~  163 (165)
T cd04140         157 FQELLNL  163 (165)
T ss_pred             HHHHHhc
Confidence            9999753

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=4.3e-32  Score=190.60  Aligned_cols=161  Identities=31%  Similarity=0.483  Sum_probs=137.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++.++.+...+.++. .+.......+++..+.+.+|||||++.+...+..+++.+|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            589999999999999999999988887777665 4455566778888899999999999999999889999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      |++++.+|+.+. .|+..+.....     ++|+++|+||+|+....          .+.+..+++..+++..+...++++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~  154 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNP-----KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIEC  154 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEE
Confidence            999999999885 68777765322     68999999999986431          356777888999998885589999


Q ss_pred             cCCCCCChHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~  179 (210)
                      ||++|.|++++|+.++-+
T Consensus       155 Sa~~~~~v~~lf~~~~~~  172 (173)
T cd04130         155 SALTQKNLKEVFDTAILA  172 (173)
T ss_pred             eCCCCCCHHHHHHHHHhh
Confidence            999999999999988753

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,

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=2.2e-32  Score=191.21  Aligned_cols=165  Identities=24%  Similarity=0.324  Sum_probs=138.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ...+||+++|++|+|||||+++|+++.+. ..+.++.+.++....+.+++..+.+.+||++|++.+......+++.+|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~   81 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVA   81 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEE
Confidence            46899999999999999999999999988 77888888777777778888888999999999999988888889999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+...      .++|+++|+||+|+.+.  ......+...+++..+...++++||++|.|
T Consensus        82 llv~d~~~~~s~~~~~~~~~~~~~~------~~~p~iiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  153 (169)
T cd01892          82 CLVYDSSDPKSFSYCAEVYKKYFML------GEIPCLFVAAKADLDEQ--QQRYEVQPDEFCRKLGLPPPLHFSSKLGDS  153 (169)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHhccC------CCCeEEEEEEccccccc--ccccccCHHHHHHHcCCCCCEEEEeccCcc
Confidence            9999999999999888887765321      26899999999999643  223334455666766644579999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 028305          169 IDEAFLCVAEIALK  182 (210)
Q Consensus       169 v~~~~~~l~~~~~~  182 (210)
                      ++++|+.+++.+..
T Consensus       154 v~~lf~~l~~~~~~  167 (169)
T cd01892         154 SNELFTKLATAAQY  167 (169)
T ss_pred             HHHHHHHHHHHhhC
Confidence            99999999998763

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.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=100.00  E-value=4.1e-32  Score=190.95  Aligned_cols=162  Identities=29%  Similarity=0.535  Sum_probs=137.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEEC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDV   94 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~   94 (210)
                      |+|+|++|+|||||+++|..+.+...+.++....+ ...+..++..+.+.+|||||++.+..+...+++.+|++|+|||+
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            68999999999999999999998877777765444 45567788889999999999999998889999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEecC
Q 028305           95 NVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        95 ~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      +++++|+.+. .|+..+.....     ++|+++|+||+|+....          ...+..+++..+++..+...++++||
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa  154 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCP-----NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSA  154 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecC
Confidence            9999999986 58887766532     78999999999996531          12366778888999888668999999


Q ss_pred             CCCCChHHHHHHHHHHHHh
Q 028305          164 KEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++|.|++++|+.+++.+++
T Consensus       155 ~~~~~v~~lf~~l~~~~~~  173 (174)
T smart00174      155 LTQEGVREVFEEAIRAALN  173 (174)
T ss_pred             CCCCCHHHHHHHHHHHhcC
Confidence            9999999999999998754

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=4.1e-32  Score=199.49  Aligned_cols=167  Identities=31%  Similarity=0.502  Sum_probs=139.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|+.+.+...+.++.+ ++....+.+++..+.+.+|||+|++.+..+...++..+|++|+||
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            5899999999999999999999998877777775 555667788888899999999999988888787889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCC-----CCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADP-----GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~-----~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      |++++++|+.+..|+..+......     ....++|+++|+||+|+...  +.+..+++..++.......++++||++|.
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~--~~v~~~ei~~~~~~~~~~~~~evSAktg~  157 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFP--REVQRDEVEQLVGGDENCAYFEVSAKKNS  157 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhc--cccCHHHHHHHHHhcCCCEEEEEeCCCCC
Confidence            999999999999998888764211     12237899999999999753  45666777777665444789999999999


Q ss_pred             ChHHHHHHHHHHHHh
Q 028305          168 NIDEAFLCVAEIALK  182 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~  182 (210)
                      |++++|++|++.+..
T Consensus       158 gI~elf~~L~~~~~~  172 (247)
T cd04143         158 NLDEMFRALFSLAKL  172 (247)
T ss_pred             CHHHHHHHHHHHhcc
Confidence            999999999987643

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

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=3.1e-33  Score=183.14  Aligned_cols=170  Identities=36%  Similarity=0.635  Sum_probs=158.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...||++++|.-=+|||||+-|++.+.|......+....+..+.+++.+....+.||||+|+++|..+-+.|++.++++
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            45689999999999999999999999999988888888888888889989999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||+++.+||+.+..|..++..+...    .+-+++|+||+|+.++  +.+..++....++..+ ..|+++||+++.|
T Consensus        90 lLVyDITDrdSFqKVKnWV~Elr~mlGn----ei~l~IVGNKiDLEee--R~Vt~qeAe~YAesvG-A~y~eTSAk~N~G  162 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKVKNWVLELRTMLGN----EIELLIVGNKIDLEEE--RQVTRQEAEAYAESVG-ALYMETSAKDNVG  162 (218)
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHhCC----eeEEEEecCcccHHHh--hhhhHHHHHHHHHhhc-hhheecccccccC
Confidence            9999999999999999999999988765    6789999999999876  8999999999999999 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      |.++|+.|..++++.-.
T Consensus       163 i~elFe~Lt~~MiE~~s  179 (218)
T KOG0088|consen  163 ISELFESLTAKMIEHSS  179 (218)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            99999999999887753

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=5.5e-32  Score=192.57  Aligned_cols=160  Identities=24%  Similarity=0.395  Sum_probs=128.3

Q ss_pred             eEEEEEEcCCCCcHHHHHH-HHhhCc-----CCCcccceeee-EEEEEE--------EEeCCeEEEEEEEeCCCcccccc
Q 028305           12 LLKVIVLGDSGVGKTSLMN-QYVYNK-----FSQQYKATIGA-DFVTKE--------LQMDDKLVTLQIWDTAGQERFQS   76 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~g~~~~~~   76 (210)
                      .+||+++|+.|+|||||+. ++.++.     +...+.|+++. +.+...        ..+++..+.+.+|||+|++.  .
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            5899999999999999995 565443     34556677642 322222        25688899999999999875  3


Q ss_pred             cccccccCCcEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-----------------CC
Q 028305           77 LGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGG-----------------SS  138 (210)
Q Consensus        77 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-----------------~~  138 (210)
                      ....+++++|++|+|||++++.+|+.+. .|+..+.....     ++|+++|+||+|+...                 ..
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-----~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~  154 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-----RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNA  154 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-----CCCEEEEEEchhccccccchhhhcccccccccccC
Confidence            4456789999999999999999999997 58888766542     6799999999998642                 13


Q ss_pred             cccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +.+..++++.+++..+ .+|++|||++|.||+++|+.+++.
T Consensus       155 ~~V~~~e~~~~a~~~~-~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         155 DILPPETGRAVAKELG-IPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CccCHHHHHHHHHHhC-CEEEEcCCCCCCCHHHHHHHHHHh
Confidence            6788899999999998 699999999999999999999864

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=9.2e-32  Score=187.17  Aligned_cols=162  Identities=41%  Similarity=0.730  Sum_probs=142.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|+++.+.....++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++|
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            47999999999999999999999998876777877777778888888889999999999998888888889999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      +|+++++++.....|+..+.....    .++|+++++||+|+.+.  +....++...++...+ ..++++||++|.|+.+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~----~~~~iivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~  153 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNAS----PNIIIALVGNKADLESK--RQVSTEEAQEYADENG-LLFFETSAKTGENVNE  153 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCC----CCCeEEEEEECcccccc--CcCCHHHHHHHHHHcC-CEEEEEECCCCCCHHH
Confidence            999999999999999998877643    27899999999998753  4456667777888777 8899999999999999


Q ss_pred             HHHHHHHHH
Q 028305          172 AFLCVAEIA  180 (210)
Q Consensus       172 ~~~~l~~~~  180 (210)
                      +|++|++.+
T Consensus       154 l~~~l~~~l  162 (163)
T cd01860         154 LFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHh
Confidence            999999875

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=8.5e-32  Score=187.55  Aligned_cols=160  Identities=33%  Similarity=0.567  Sum_probs=135.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC--cCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN--KFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +||+++|++|||||||+++|..+  .+...+.++.+.++......++ +..+.+.+|||||+..+..+...+++.+|+++
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            48999999999999999999865  6777788888888776666664 56799999999999988888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++++++.+..|+..+....     .++|+++|+||+|+.+.  ......+...+....+ .+++++||++|.|+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-----~~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi  152 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-----KHMPGVLVGNKMDLADK--AEVTDAQAQAFAQANQ-LKFFKTSALRGVGY  152 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-----CCCCEEEEEECcccccc--cCCCHHHHHHHHHHcC-CeEEEEeCCCCCCh
Confidence            9999999999999999998887654     26899999999999654  3444555556666666 78999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          170 DEAFLCVAEIA  180 (210)
Q Consensus       170 ~~~~~~l~~~~  180 (210)
                      +++|+.+++.+
T Consensus       153 ~~l~~~l~~~~  163 (164)
T cd04101         153 EEPFESLARAF  163 (164)
T ss_pred             HHHHHHHHHHh
Confidence            99999999875

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.

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=1.8e-31  Score=186.57  Aligned_cols=164  Identities=34%  Similarity=0.630  Sum_probs=140.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            37999999999999999999999988777777776443 56667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++++++.+..|...+.+...   ..+.|+++++||.|+.+.  +....++...+++..+..+++++||++|.|+++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~  154 (168)
T cd04177          80 YSVTSEASLNELGELREQVLRIKD---SDNVPMVLVGNKADLEDD--RQVSREDGVSLSQQWGNVPFYETSARKRTNVDE  154 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhC---CCCCCEEEEEEChhcccc--CccCHHHHHHHHHHcCCceEEEeeCCCCCCHHH
Confidence            999999999999999888876432   227899999999999654  455666777777777768899999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          172 AFLCVAEIAL  181 (210)
Q Consensus       172 ~~~~l~~~~~  181 (210)
                      +|++++..++
T Consensus       155 ~f~~i~~~~~  164 (168)
T cd04177         155 VFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999987654

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

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6.3e-34  Score=186.51  Aligned_cols=175  Identities=38%  Similarity=0.633  Sum_probs=158.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe---------CCeEEEEEEEeCCCccccccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---------DDKLVTLQIWDTAGQERFQSLGS   79 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~i~D~~g~~~~~~~~~   79 (210)
                      .+..+|.+.+|+.|+|||||+.++..+.|..+...++++++..+.+.+         .+..+.+++|||+|+++|++++.
T Consensus         6 ydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTT   85 (219)
T KOG0081|consen    6 YDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTT   85 (219)
T ss_pred             HHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHH
Confidence            356788999999999999999999999999999999999998887765         34568899999999999999999


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+++.+=+++++||+++..||-++..|+.+++.++..   +++.+++++||+|+.+.  +++..++...++.+++ ++||
T Consensus        86 AFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYc---E~PDivlcGNK~DL~~~--R~Vs~~qa~~La~kyg-lPYf  159 (219)
T KOG0081|consen   86 AFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYC---ENPDIVLCGNKADLEDQ--RVVSEDQAAALADKYG-LPYF  159 (219)
T ss_pred             HHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhcc---CCCCEEEEcCccchhhh--hhhhHHHHHHHHHHhC-CCee
Confidence            9999999999999999999999999999999876543   37789999999999876  8999999999999999 9999


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhccccccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      ++||-+|.||++..+.++..++++.++-..
T Consensus       160 ETSA~tg~Nv~kave~LldlvM~Rie~~v~  189 (219)
T KOG0081|consen  160 ETSACTGTNVEKAVELLLDLVMKRIEQCVE  189 (219)
T ss_pred             eeccccCcCHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999988774433

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=8e-34  Score=180.86  Aligned_cols=162  Identities=43%  Similarity=0.671  Sum_probs=150.3

Q ss_pred             EEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECC
Q 028305           17 VLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        17 v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                      ++|+.++|||+|+-++..+.|. .....++++++..+.+..++.++++++|||+|+++|++....|++.+|+++++||+.
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydia   81 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIA   81 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecc
Confidence            6899999999999998887775 456788999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHH
Q 028305           96 VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLC  175 (210)
Q Consensus        96 ~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  175 (210)
                      |..||++...|+.++..+...    .+.+.+++||+|+..+  +.+..++++.+++.++ ++++++||++|.|++-.|..
T Consensus        82 nkasfdn~~~wlsei~ey~k~----~v~l~llgnk~d~a~e--r~v~~ddg~kla~~y~-ipfmetsaktg~nvd~af~~  154 (192)
T KOG0083|consen   82 NKASFDNCQAWLSEIHEYAKE----AVALMLLGNKCDLAHE--RAVKRDDGEKLAEAYG-IPFMETSAKTGFNVDLAFLA  154 (192)
T ss_pred             cchhHHHHHHHHHHHHHHHHh----hHhHhhhccccccchh--hccccchHHHHHHHHC-CCceeccccccccHhHHHHH
Confidence            999999999999999998765    7789999999999765  8899999999999999 99999999999999999999


Q ss_pred             HHHHHHhccc
Q 028305          176 VAEIALKNEH  185 (210)
Q Consensus       176 l~~~~~~~~~  185 (210)
                      |.+.+.+..-
T Consensus       155 ia~~l~k~~~  164 (192)
T KOG0083|consen  155 IAEELKKLKM  164 (192)
T ss_pred             HHHHHHHhcc
Confidence            9999887654

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=2.3e-31  Score=184.86  Aligned_cols=161  Identities=41%  Similarity=0.694  Sum_probs=138.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|++..+...+.++.+.......+...+..+.+.+||+||++.+...+..+++.+|++++||
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            58999999999999999999998887666667666666677777787889999999999999888888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+......    ++|+++|+||+|+...  +....+++..+++..+ ..++++|++++.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~----~~piiiv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~s~~~~~gi~~~  153 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGN----NISLVIVGNKIDLERQ--RVVSKSEAEEYAKSVG-AKHFETSAKTGKGIEEL  153 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECcccccc--cCCCHHHHHHHHHHcC-CEEEEEeCCCCCCHHHH
Confidence            999999999999998888776543    6899999999999754  4455667777777666 78999999999999999


Q ss_pred             HHHHHHHH
Q 028305          173 FLCVAEIA  180 (210)
Q Consensus       173 ~~~l~~~~  180 (210)
                      ++++.+.+
T Consensus       154 ~~~l~~~~  161 (162)
T cd04123         154 FLSLAKRM  161 (162)
T ss_pred             HHHHHHHh
Confidence            99998765

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

>cd04135 Tc10 TC10 subfamily

Probab=100.00  E-value=2.6e-31  Score=186.85  Aligned_cols=163  Identities=26%  Similarity=0.429  Sum_probs=136.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|..+.+...+.++... .....+.+++..+.+.+|||+|++.+......+++.+|++++||
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            58999999999999999999999887766666643 33446677888889999999999999988899999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      |++++.+|+.+. .|...+... .    .+.|+++|+||+|+.+..          .+.+..+++..+++..+...++++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~----~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  154 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-A----PNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVEC  154 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-C----CCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEe
Confidence            999999999886 566666544 2    278999999999986432          134567788888888886689999


Q ss_pred             cCCCCCChHHHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ||++|.|++++|+.+++.++
T Consensus       155 Sa~~~~gi~~~f~~~~~~~~  174 (174)
T cd04135         155 SALTQKGLKTVFDEAILAIL  174 (174)
T ss_pred             cCCcCCCHHHHHHHHHHHhC
Confidence            99999999999999998763

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

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=2.7e-31  Score=184.46  Aligned_cols=160  Identities=42%  Similarity=0.708  Sum_probs=138.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|.+..+.....++.+.++....+.+++..+.+.+||+||++.+......+++.+|++++||
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            58999999999999999999998887667777777777677777788899999999999999888888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |.+++.+++.+..|+..+......   .++|+++|+||+|+..   .....++...++...+ .+++++|+++|.|++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~---~~~~~~iv~nK~D~~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~  153 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTN---NDIVKMLVGNKIDKEN---REVTREEGLKFARKHN-MLFIETSAKTRDGVQQA  153 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCC---CCCcEEEEEECCcccc---cccCHHHHHHHHHHcC-CEEEEEecCCCCCHHHH
Confidence            999999999999998888776432   2789999999999974   3455667778887766 89999999999999999


Q ss_pred             HHHHHHH
Q 028305          173 FLCVAEI  179 (210)
Q Consensus       173 ~~~l~~~  179 (210)
                      ++.+.+.
T Consensus       154 ~~~~~~~  160 (161)
T cd01863         154 FEELVEK  160 (161)
T ss_pred             HHHHHHh
Confidence            9999875

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

>cd04148 RGK RGK subfamily

Probab=100.00  E-value=5.2e-31  Score=191.41  Aligned_cols=165  Identities=26%  Similarity=0.371  Sum_probs=135.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccccc-CCcEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYR-GADCCVL   90 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-~~d~vi~   90 (210)
                      +||+++|++|+|||||+++|..+.+. ..+.++.+.++....+.+++....+.+|||+|++.  .....++. .+|++++
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            58999999999999999999988876 55666665566677788888889999999999872  23344556 8999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+|+.+..|+..+.....   ..++|+++|+||+|+.+.  +.+..++...++...+ .+++++||++|.|++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~---~~~~piilV~NK~Dl~~~--~~v~~~~~~~~a~~~~-~~~~e~SA~~~~gv~  152 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQ---LEDRPIILVGNKSDLARS--REVSVQEGRACAVVFD-CKFIETSAGLQHNVD  152 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEEChhcccc--ceecHHHHHHHHHHcC-CeEEEecCCCCCCHH
Confidence            9999999999999999888876532   127899999999999764  5566677778887776 789999999999999


Q ss_pred             HHHHHHHHHHHhccc
Q 028305          171 EAFLCVAEIALKNEH  185 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~  185 (210)
                      ++|+++++.+.....
T Consensus       153 ~l~~~l~~~~~~~~~  167 (221)
T cd04148         153 ELLEGIVRQIRLRRD  167 (221)
T ss_pred             HHHHHHHHHHHhhhc
Confidence            999999999875443

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

>cd04114 Rab30 Rab30 subfamily

Probab=100.00  E-value=1.2e-30  Score=182.67  Aligned_cols=164  Identities=38%  Similarity=0.666  Sum_probs=140.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||++++..+.+...+.++.+.++....+.+++..+.+.+||+||+..+......+++.+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            45799999999999999999999988887777777777787888888888899999999999988888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+....+.+... ..++++|+++|.|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~l~~~~~~----~~~~i~v~NK~D~~~~--~~i~~~~~~~~~~~~~-~~~~~~Sa~~~~gv  157 (169)
T cd04114          85 LTYDITCEESFRCLPEWLREIEQYANN----KVITILVGNKIDLAER--REVSQQRAEEFSDAQD-MYYLETSAKESDNV  157 (169)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECcccccc--cccCHHHHHHHHHHcC-CeEEEeeCCCCCCH
Confidence            999999999999998998887665432    6899999999998654  4455555666666655 78999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          170 DEAFLCVAEIA  180 (210)
Q Consensus       170 ~~~~~~l~~~~  180 (210)
                      +++|+++.+.+
T Consensus       158 ~~l~~~i~~~~  168 (169)
T cd04114         158 EKLFLDLACRL  168 (169)
T ss_pred             HHHHHHHHHHh
Confidence            99999999765

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.

>cd04129 Rho2 Rho2 subfamily

Probab=100.00  E-value=1.1e-30  Score=185.56  Aligned_cols=167  Identities=28%  Similarity=0.516  Sum_probs=137.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      .||+|+|++|+|||||+++|..+.+...+.++....+ ...+..++..+.+.+||++|++.+......+++.+|+++++|
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            5899999999999999999998888766666654443 345667788889999999999888777777788999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--------CcccchHHHHHHHHHcCCCcEEEecC
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--------SRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      |++++++++.+. .|+..+.....     ++|+++|+||+|+.+..        .+.+..++...+++..+...++++||
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~~-----~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa  155 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYCP-----NVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSA  155 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccC
Confidence            999999999986 58777765432     68999999999985421        23455667888888888668999999


Q ss_pred             CCCCChHHHHHHHHHHHHhccc
Q 028305          164 KEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++|.|++++|+++.+.++..++
T Consensus       156 ~~~~~v~~~f~~l~~~~~~~~~  177 (187)
T cd04129         156 LTGEGVDDVFEAATRAALLVRK  177 (187)
T ss_pred             CCCCCHHHHHHHHHHHHhcccC
Confidence            9999999999999999877766

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).

>cd01870 RhoA_like RhoA-like subfamily

Probab=100.00  E-value=7.9e-31  Score=184.54  Aligned_cols=162  Identities=27%  Similarity=0.516  Sum_probs=134.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      .||+++|++|||||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+......++..+|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            5899999999999999999999988877777776544 345677888899999999999998888888889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      |++++++++.+. .|...+.....     +.|+++|+||+|+....          ...+...+.+.++...+...++++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~  155 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFCP-----NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMEC  155 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEe
Confidence            999999998885 57776655432     78999999999986431          123445677888888776789999


Q ss_pred             cCCCCCChHHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ||++|.|++++|+++.+.+
T Consensus       156 Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         156 SAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             ccccCcCHHHHHHHHHHHh
Confidence            9999999999999998765

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=2.9e-31  Score=185.05  Aligned_cols=162  Identities=28%  Similarity=0.441  Sum_probs=132.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-ccccccccccCCcEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-FQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d~vi~v~   92 (210)
                      ||+++|++|+|||||+++++.+.+...+.++....+ ...+.+++..+.+.+||+||+.. .......+++.+|++|+||
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            589999999999999999998887766666654333 45567788889999999999885 3445677889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC-CChHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED-CNIDE  171 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-~~v~~  171 (210)
                      |++++.+++.+..|+..+.....  ...++|+++|+||+|+.+.  +.+..++...+++..+ .+++++||++| .|+++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~--~~~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sa~~~~~~v~~  154 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKK--RDREIPVILVGNKADLLHY--RQVSTEEGEKLASELG-CLFFEVSAAEDYDGVHS  154 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhc--CCCCCCEEEEEECCchHHh--CccCHHHHHHHHHHcC-CEEEEeCCCCCchhHHH
Confidence            99999999999999888876532  1126899999999998654  4556677888888887 78999999999 59999


Q ss_pred             HHHHHHHHHH
Q 028305          172 AFLCVAEIAL  181 (210)
Q Consensus       172 ~~~~l~~~~~  181 (210)
                      +|+.+++.+.
T Consensus       155 ~f~~l~~~~~  164 (165)
T cd04146         155 VFHELCREVR  164 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.98  E-value=6.2e-31  Score=188.43  Aligned_cols=188  Identities=30%  Similarity=0.447  Sum_probs=144.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|+|||||+++|+.+.+...+.++.. +.....+.+.+..+.+.+||++|+..+..+...++..+|++|+|||
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            689999999999999999999888766666653 3445567777877899999999999988888888999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHH
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ++++.+++.+..|+..+......   .++|+++|+||+|+.+.. .....+.............++++||++|.|++++|
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~NK~Dl~~~~-~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~  155 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKED---KFVPIVVVGNKADSLEEE-RQVPAKDALSTVELDWNCGFVETSAKDNENVLEVF  155 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEEcccccccc-ccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHH
Confidence            99999999999998888765432   268999999999986531 33334444444432333789999999999999999


Q ss_pred             HHHHHHHHhcccccccCCCCCcceecccccccccc
Q 028305          174 LCVAEIALKNEHKDIYYQPQGISETVSEVEQRGGC  208 (210)
Q Consensus       174 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c  208 (210)
                      +++++.+.........  .+......++.+++++|
T Consensus       156 ~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~  188 (198)
T cd04147         156 KELLRQANLPYNLSPA--LRRRRESLPSEIQRRPP  188 (198)
T ss_pred             HHHHHHhhcccccchh--hHHHHhhccHhhhcCCC
Confidence            9999988644442222  22333334555777777

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.

>cd00154 Rab Rab family

Probab=99.98  E-value=1.8e-30  Score=179.49  Aligned_cols=159  Identities=47%  Similarity=0.834  Sum_probs=140.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||+||+..+......+++++|++++|+
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            58999999999999999999999988877888888888888888888899999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++++++.+..|+..+......    +.|+++++||+|+...  .....++...++...+ .+++++|++++.|++++
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~----~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~  153 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPE----NIPIILVGNKIDLEDQ--RQVSTEEAQQFAKENG-LLFFETSAKTGENVEEL  153 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEEccccccc--ccccHHHHHHHHHHcC-CeEEEEecCCCCCHHHH
Confidence            999999999999999888776532    6899999999999632  4556778888888765 89999999999999999


Q ss_pred             HHHHHH
Q 028305          173 FLCVAE  178 (210)
Q Consensus       173 ~~~l~~  178 (210)
                      |++|.+
T Consensus       154 ~~~i~~  159 (159)
T cd00154         154 FQSLAE  159 (159)
T ss_pred             HHHHhC
Confidence            999863

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=4.4e-30  Score=178.79  Aligned_cols=163  Identities=33%  Similarity=0.603  Sum_probs=137.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++++...+...+.++....+ ......++..+.+.+||+||+..+......+++.+|++++++
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            5899999999999999999999888766666665443 455667888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.++..+..|+..+.....   ..++|+++|+||+|+...  ......+...+....+ .+++++||++|.|++++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~---~~~~piiiv~NK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~l  153 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKD---DDNVPLLLVGNKCDLEDK--RQVSSEEAANLARQWG-VPYVETSAKTRQNVEKA  153 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEEccccccc--cccCHHHHHHHHHHhC-CeEEEeeCCCCCCHHHH
Confidence            99999999999999888887643   227899999999999753  3345566667777666 79999999999999999


Q ss_pred             HHHHHHHHHh
Q 028305          173 FLCVAEIALK  182 (210)
Q Consensus       173 ~~~l~~~~~~  182 (210)
                      |+++.+.+.+
T Consensus       154 ~~~l~~~~~~  163 (164)
T cd04139         154 FYDLVREIRQ  163 (164)
T ss_pred             HHHHHHHHHh
Confidence            9999987753

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.97  E-value=7e-30  Score=180.75  Aligned_cols=168  Identities=34%  Similarity=0.554  Sum_probs=152.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+++|.+|+|||+|+.+|+...|...+.|+++ +.+.+...++++.+.+.|+||+|++++..+...+++.+|++++
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            468999999999999999999999999999999997 6668888899999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      ||+++++.||+.+..++..+.+....   ..+|+++||||+|+...  +.+..+++..++..++ ++++++||+.+.+++
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~---~~~PivlVGNK~Dl~~~--R~V~~eeg~~la~~~~-~~f~E~Sak~~~~v~  154 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGR---DDVPIILVGNKCDLERE--RQVSEEEGKALARSWG-CAFIETSAKLNYNVD  154 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCc---CCCCEEEEEEcccchhc--cccCHHHHHHHHHhcC-CcEEEeeccCCcCHH
Confidence            99999999999999999998543332   26899999999999876  8999999999999998 679999999999999


Q ss_pred             HHHHHHHHHHHhccc
Q 028305          171 EAFLCVAEIALKNEH  185 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~  185 (210)
                      ++|..|.+.+-....
T Consensus       155 ~~F~~L~r~~~~~~~  169 (196)
T KOG0395|consen  155 EVFYELVREIRLPRE  169 (196)
T ss_pred             HHHHHHHHHHHhhhc
Confidence            999999998877333

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.97  E-value=9.1e-31  Score=181.27  Aligned_cols=170  Identities=31%  Similarity=0.509  Sum_probs=153.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ...+|++|||+.++|||+|+..+..+.|+..+.|+.. +.+...+.++ +..+.+.+|||+|+++|..++...+.++|++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            4578999999999999999999999999999999997 6667778884 9999999999999999999888889999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCc
Q 028305           89 VLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ++||++.++.+++++ ..|+.++..++.     ++|+|+||+|.|+..+.          ...+..+++..++++.+...
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~cp-----~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~  155 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHCP-----NVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVK  155 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhCC-----CCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcce
Confidence            999999999999996 589999988875     88999999999997432          13578889999999999999


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |+++||+++.|++++|+..+..++...+
T Consensus       156 y~EcSa~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  156 YLECSALTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             eeeehhhhhCCcHHHHHHHHHHHhcccc
Confidence            9999999999999999999999988754

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=2e-29  Score=178.21  Aligned_cols=166  Identities=34%  Similarity=0.503  Sum_probs=137.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      .||+++|++|+|||||+++|....+...+.++....+ ...+..++..+.+.+||+||++++......++..+++++++|
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            6899999999999999999998888766666654433 455566777788999999999998888888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |+++..+++.+..|+..+.+....   .+.|+++|+||+|+...  +....++...+++..+ .+++++||+++.|+.++
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gv~~l  154 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGK---ESVPIVLVGNKSDLHTQ--RQVSTEEGKELAESWG-AAFLESSARENENVEEA  154 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEEchhhhhc--CccCHHHHHHHHHHcC-CeEEEEeCCCCCCHHHH
Confidence            999999999999988888765321   26799999999998653  3445556667777666 78999999999999999


Q ss_pred             HHHHHHHHHhccc
Q 028305          173 FLCVAEIALKNEH  185 (210)
Q Consensus       173 ~~~l~~~~~~~~~  185 (210)
                      |.++.+.+...+.
T Consensus       155 ~~~l~~~~~~~~~  167 (180)
T cd04137         155 FELLIEEIEKVEN  167 (180)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999876654

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=3.1e-29  Score=181.90  Aligned_cols=169  Identities=27%  Similarity=0.622  Sum_probs=144.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      +.....+||+++|++|||||||+++++.+.+...+.++.+.++....+..++..+.+.+|||+|++.+...+..++..++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            45667899999999999999999999988888888889988888888878888899999999999999888888899999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||+++..++..+..|+..+.....     ++|+++++||+|+...   ....+ ...+++..+ ..++++|+++|
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-----~~~i~lv~nK~Dl~~~---~~~~~-~~~~~~~~~-~~~~e~Sa~~~  153 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVPNWHRDIVRVCE-----NIPIVLVGNKVDVKDR---QVKAR-QITFHRKKN-LQYYDISAKSN  153 (215)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECccCccc---cCCHH-HHHHHHHcC-CEEEEEeCCCC
Confidence            99999999999999999999988876542     7899999999998642   22222 234555555 78999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|+++.|.+|++.+.....
T Consensus       154 ~~v~~~f~~ia~~l~~~p~  172 (215)
T PTZ00132        154 YNFEKPFLWLARRLTNDPN  172 (215)
T ss_pred             CCHHHHHHHHHHHHhhccc
Confidence            9999999999999886533

>cd00876 Ras Ras family

Probab=99.97  E-value=1.1e-29  Score=176.01  Aligned_cols=159  Identities=38%  Similarity=0.639  Sum_probs=136.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|||||||++++++..+...+.++.. +........++..+.+.+||+||+..+......+++.+|++++|||
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            689999999999999999998887766666665 4555666777777899999999999888888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHH
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      +++++++..+..|+..+......   ..+|+++|+||+|+...  .....+++..++...+ .+++++|++++.|++++|
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~---~~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~S~~~~~~i~~l~  153 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDD---EDIPIVLVGNKCDLENE--RQVSKEEGKALAKEWG-CPFIETSAKDNINIDEVF  153 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEECCccccc--ceecHHHHHHHHHHcC-CcEEEeccCCCCCHHHHH
Confidence            99999999999998888776432   27899999999999763  4566678888888777 899999999999999999


Q ss_pred             HHHHHH
Q 028305          174 LCVAEI  179 (210)
Q Consensus       174 ~~l~~~  179 (210)
                      ++|++.
T Consensus       154 ~~l~~~  159 (160)
T cd00876         154 KLLVRE  159 (160)
T ss_pred             HHHHhh
Confidence            999875

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=2.5e-30  Score=181.76  Aligned_cols=159  Identities=17%  Similarity=0.280  Sum_probs=121.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|++|+|||||++++..+.+. .+.++.+.+...  ...  ..+.+.+||+||++.+...+..+++.+|++|
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii   85 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLI   85 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEE
Confidence            45699999999999999999999877764 456666655532  333  3478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~  165 (210)
                      +|||++++.+++....|+..+.+...   ..++|+++|+||+|+.+..    ..+++......    .....++++||++
T Consensus        86 ~v~D~t~~~s~~~~~~~l~~~~~~~~---~~~~piilv~NK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~~Sa~~  158 (175)
T smart00177       86 FVVDSNDRDRIDEAREELHRMLNEDE---LRDAVILVFANKQDLPDAM----KAAEITEKLGLHSIRDRNWYIQPTCATS  158 (175)
T ss_pred             EEEECCCHHHHHHHHHHHHHHhhCHh---hcCCcEEEEEeCcCcccCC----CHHHHHHHhCccccCCCcEEEEEeeCCC
Confidence            99999999999998888777754311   1268999999999996531    22222222211    1124577899999


Q ss_pred             CCChHHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEIA  180 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~  180 (210)
                      |.|++++|++|.+.+
T Consensus       159 g~gv~e~~~~l~~~~  173 (175)
T smart00177      159 GDGLYEGLTWLSNNL  173 (175)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998764

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).

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=2e-29  Score=176.71  Aligned_cols=160  Identities=29%  Similarity=0.537  Sum_probs=131.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|+++.+...+.++.... ........+..+.+.+||+||++++......+++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDN-YSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            589999999999999999999998866666666433 3445567788899999999999988887788889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc---------ccchHHHHHHHHHcCCCcEEEec
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR---------VVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      |++++.++.... .|+..+.....     ++|+++|+||+|+......         .+..++...+....+..+++++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~-----~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  154 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCP-----NVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECS  154 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCC-----CCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEee
Confidence            999999988765 46666655433     6899999999999765322         33567788888888855999999


Q ss_pred             CCCCCChHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAE  178 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~  178 (210)
                      |++|.|++++|+++++
T Consensus       155 a~~~~gi~~l~~~i~~  170 (171)
T cd00157         155 ALTQEGVKEVFEEAIR  170 (171)
T ss_pred             cCCCCCHHHHHHHHhh
Confidence            9999999999999875

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=1.7e-30  Score=181.46  Aligned_cols=157  Identities=17%  Similarity=0.303  Sum_probs=121.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.++|+++|++|+|||||+++|..+.+. .+.++.+.+..  ....  ..+.+.+|||+|++.+...+..+++.+|++|
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii   81 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   81 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            45689999999999999999999877765 34566665543  2223  3488999999999999888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH---c-CCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY---R-GNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~Sa~~  165 (210)
                      +|||++++.++.....|+..+.....   ..++|+++|+||+|+.+.    ...+++......   . ....++++||++
T Consensus        82 ~v~D~t~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~~----~~~~~i~~~~~~~~~~~~~~~~~~~SAk~  154 (168)
T cd04149          82 FVVDSADRDRIDEARQELHRIINDRE---MRDALLLVFANKQDLPDA----MKPHEIQEKLGLTRIRDRNWYVQPSCATS  154 (168)
T ss_pred             EEEeCCchhhHHHHHHHHHHHhcCHh---hcCCcEEEEEECcCCccC----CCHHHHHHHcCCCccCCCcEEEEEeeCCC
Confidence            99999999999888887776654211   126799999999998642    334555554321   1 124689999999


Q ss_pred             CCChHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAE  178 (210)
Q Consensus       166 ~~~v~~~~~~l~~  178 (210)
                      |.|++++|++|.+
T Consensus       155 g~gv~~~~~~l~~  167 (168)
T cd04149         155 GDGLYEGLTWLSS  167 (168)
T ss_pred             CCChHHHHHHHhc
Confidence            9999999999864

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.97  E-value=1.4e-29  Score=176.69  Aligned_cols=163  Identities=26%  Similarity=0.378  Sum_probs=123.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|..+.+...+..+. ... .....+++..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVL-PEI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCcc-cce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            489999999999999999999988865533322 222 333455667789999999999887777777789999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC-CcEEEecCCCCCChH
Q 028305           93 DVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN-IPYFETSAKEDCNID  170 (210)
Q Consensus        93 d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  170 (210)
                      |++++.+++.+. .|...+.....     ++|+++|+||+|+.+........+++..++..... ..++++||++|.|++
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~-----~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  153 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGV-----KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVS  153 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHH
Confidence            999999999975 56666655432     68999999999997643211123334444444432 379999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|+.+.+.+.+
T Consensus       154 ~lf~~~~~~~~~  165 (166)
T cd01893         154 EVFYYAQKAVLH  165 (166)
T ss_pred             HHHHHHHHHhcC
Confidence            999999988764

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=7.9e-30  Score=178.39  Aligned_cols=160  Identities=19%  Similarity=0.320  Sum_probs=126.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|||||||+++|.+..+.. +.++.+.+..  .+..  ..+.+.+|||||+.++...+..+++.+|++++|+|
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            68999999999999999999887653 5666655553  2333  34789999999999998888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC-----CCcEEEecCCCCCC
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG-----NIPYFETSAKEDCN  168 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~  168 (210)
                      .+++.+++.+..|+..+.+...   ..+.|+++|+||+|+..    ....+++...+...+     ...++++||++|.|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  148 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKE---LRDALLLIFANKQDVAG----ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMG  148 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChh---hCCCCEEEEEeCcCccc----CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCC
Confidence            9999999999888888765321   12579999999999964    244555555543221     13688999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|++.++...+
T Consensus       149 v~~~f~~l~~~~~~~~~  165 (169)
T cd04158         149 LYEGLDWLSRQLVAAGV  165 (169)
T ss_pred             HHHHHHHHHHHHhhccc
Confidence            99999999998877654

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=5.4e-30  Score=180.79  Aligned_cols=162  Identities=15%  Similarity=0.278  Sum_probs=123.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|++|||||||++++..+.+. .+.|+.+.+..  .+..  ..+.+.+||+||++.+..++..+++++|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            45689999999999999999999877775 45666665543  2333  3478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~  165 (210)
                      +|||+++++++.....++..+....   ...++|++||+||.|+...    ...+++...+.-.    +...++++||++
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~---~~~~~piilv~NK~Dl~~~----~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~  162 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNED---ELRDAVLLVFANKQDLPNA----MNAAEITDKLGLHSLRQRHWYIQSTCATS  162 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCH---hhCCCCEEEEEECCCCCCC----CCHHHHHHHhCccccCCCceEEEeccCCC
Confidence            9999999999988777666654321   1126899999999998753    2233333322111    112466899999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |+|+.++|++|.+.+.+.
T Consensus       163 g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        163 GEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             CCCHHHHHHHHHHHHhhc
Confidence            999999999999887653

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=1.5e-29  Score=179.02  Aligned_cols=166  Identities=21%  Similarity=0.314  Sum_probs=128.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      .+||+++|++|||||||++++..+.+... .++.+.+.....+.. ++..+.+.+|||+|++.+...+..+++.+|++++
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            58999999999999999999998877643 555555554444433 3456889999999999998889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH--c---CCCcEEEecCCC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY--R---GNIPYFETSAKE  165 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~--~---~~~~~~~~Sa~~  165 (210)
                      |+|++++.+++....|+..+......   .+.|+++|+||+|+.+.    ...+++..+...  .   ...+++++||++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~---~~~p~iiv~NK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  154 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSEN---QGVPVLVLANKQDLPNA----LSVSEVEKLLALHELSASTPWHVQPACAII  154 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhc---CCCcEEEEEECcCcccc----CCHHHHHHHhCccccCCCCceEEEEeeccc
Confidence            99999999888888887777654321   26899999999998642    223334433321  1   124689999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|+++++++|.+.+.+.++
T Consensus       155 ~~gi~~l~~~l~~~l~~~~~  174 (183)
T cd04152         155 GEGLQEGLEKLYEMILKRRK  174 (183)
T ss_pred             CCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999976655

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=5.4e-30  Score=177.42  Aligned_cols=154  Identities=16%  Similarity=0.292  Sum_probs=116.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|.+|||||||++++..+.+. .+.|+.+.+..  .+..  ..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            48999999999999999999877776 45666665543  2333  3488999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH-HHHHH---HcCCCcEEEecCCCCCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA-LEWCA---YRGNIPYFETSAKEDCN  168 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~Sa~~~~~  168 (210)
                      |++++.+++....|+..+.....   ..++|+++++||+|+....    ..+++ ..+..   ......++++||++|.|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~g  148 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDE---LRDAVLLVFANKQDLPNAM----SAAEVTDKLGLHSLRNRNWYIQATCATSGDG  148 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHH---hcCCCEEEEEECCCCCCCC----CHHHHHHHhCccccCCCCEEEEEeeCCCCCC
Confidence            99999999988887776653211   1267999999999996431    12222 22211   01124578999999999


Q ss_pred             hHHHHHHHHH
Q 028305          169 IDEAFLCVAE  178 (210)
Q Consensus       169 v~~~~~~l~~  178 (210)
                      ++++|++|.+
T Consensus       149 v~~~~~~l~~  158 (159)
T cd04150         149 LYEGLDWLSN  158 (159)
T ss_pred             HHHHHHHHhc
Confidence            9999999864

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.5e-29  Score=178.82  Aligned_cols=162  Identities=17%  Similarity=0.288  Sum_probs=122.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+++|++|||||||++++..+.+.. +.++.+.++.  .+..  ..+.+.+|||+|++.+...+..+++.+|++|
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI   89 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLI   89 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            446899999999999999999998777754 5566665543  2333  4478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~  165 (210)
                      +|+|++++.+++....++..+....   ...++|+++|+||.|+.+..    ..+++......    .....++++||++
T Consensus        90 ~v~D~t~~~s~~~~~~~l~~~~~~~---~~~~~piilv~NK~Dl~~~~----~~~~i~~~l~~~~~~~~~~~~~~~Sa~t  162 (182)
T PTZ00133         90 FVVDSNDRERIGDAREELERMLSED---ELRDAVLLVFANKQDLPNAM----STTEVTEKLGLHSVRQRNWYIQGCCATT  162 (182)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhCH---hhcCCCEEEEEeCCCCCCCC----CHHHHHHHhCCCcccCCcEEEEeeeCCC
Confidence            9999999999988877666664321   12267999999999986431    12222221111    1113567999999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.
T Consensus       163 g~gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        163 AQGLYEGLDWLSANIKKS  180 (182)
T ss_pred             CCCHHHHHHHHHHHHHHh
Confidence            999999999999887654

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=5.7e-30  Score=178.16  Aligned_cols=155  Identities=17%  Similarity=0.223  Sum_probs=121.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      .|+++|++|+|||||+++|.++.+...+.++.+...    ..++...+.+.+||++|++.+...+..+++.+|++++|||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   76 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD   76 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence            489999999999999999998887777777776543    2234456889999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCccc--chHHHHHHHHHcCCCcEEEecCCC------
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVV--PQKKALEWCAYRGNIPYFETSAKE------  165 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~------  165 (210)
                      .+++.++.....|+..+....     .++|+++|+||.|+........  ...++..+++..+ ..++++||++      
T Consensus        77 ~t~~~s~~~~~~~l~~~~~~~-----~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~-~~~~~~Sa~~~~s~~~  150 (164)
T cd04162          77 SADSERLPLARQELHQLLQHP-----PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRR-WILQGTSLDDDGSPSR  150 (164)
T ss_pred             CCCHHHHHHHHHHHHHHHhCC-----CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCc-eEEEEeeecCCCChhH
Confidence            999999998888877775432     2789999999999875421110  0122344555444 7789999988      


Q ss_pred             CCChHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAE  178 (210)
Q Consensus       166 ~~~v~~~~~~l~~  178 (210)
                      ++|++++|+.++.
T Consensus       151 ~~~v~~~~~~~~~  163 (164)
T cd04162         151 MEAVKDLLSQLIN  163 (164)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998863

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=4.9e-29  Score=175.09  Aligned_cols=158  Identities=18%  Similarity=0.327  Sum_probs=121.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...++|+++|++|+|||||+++|.+..+. .+.++.+..  ...+.++  .+.+.+||+||++.+...+..+++.+|++
T Consensus        11 ~~~~~kv~ivG~~~~GKTsL~~~l~~~~~~-~~~~t~g~~--~~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~   85 (173)
T cd04154          11 KEREMRILILGLDNAGKTTILKKLLGEDID-TISPTLGFQ--IKTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDAL   85 (173)
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHccCCCC-CcCCccccc--eEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEE
Confidence            456789999999999999999999977543 444555432  3334444  47799999999998888888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAK  164 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~  164 (210)
                      ++|||++++.++.....|+..+....   ...++|+++|+||+|+.+.    ...+++......    ....+++++||+
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~p~iiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  158 (173)
T cd04154          86 IWVVDSSDRLRLDDCKRELKELLQEE---RLAGATLLILANKQDLPGA----LSEEEIREALELDKISSHHWRIQPCSAV  158 (173)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhCh---hhcCCCEEEEEECcccccC----CCHHHHHHHhCccccCCCceEEEeccCC
Confidence            99999999999988888877765421   1127899999999999753    133444444422    224689999999


Q ss_pred             CCCChHHHHHHHHH
Q 028305          165 EDCNIDEAFLCVAE  178 (210)
Q Consensus       165 ~~~~v~~~~~~l~~  178 (210)
                      +|.|++++|+++++
T Consensus       159 ~g~gi~~l~~~l~~  172 (173)
T cd04154         159 TGEGLLQGIDWLVD  172 (173)
T ss_pred             CCcCHHHHHHHHhc
Confidence            99999999999864

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=3.6e-28  Score=173.21  Aligned_cols=166  Identities=23%  Similarity=0.340  Sum_probs=128.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-----CeEEEEEEEeCCCcccccccccccccCCcE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-----DKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +||+++|+.|+|||||+++|+.+.+...+.++.+.++..+.+.++     +..+.+.+|||+|++.+..+...+++++|+
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            589999999999999999999999988888888877776666663     467899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcC---------------CCCCCCCCEEEEEecCCCCCCCC--cccchHHHHHHH
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQAD---------------PGEHEACPFVLLGNKIDTDGGSS--RVVPQKKALEWC  150 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~---------------~~~~~~~p~ilv~~K~D~~~~~~--~~~~~~~~~~~~  150 (210)
                      +|+|||++++.+++++..|+..+.....               .....++|+++|+||+|+.+...  ..........++
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            9999999999999999999999876421               01123789999999999965411  111222344566


Q ss_pred             HHcCCCcEEEecCCCCC----------ChHHHHHHHHHH
Q 028305          151 AYRGNIPYFETSAKEDC----------NIDEAFLCVAEI  179 (210)
Q Consensus       151 ~~~~~~~~~~~Sa~~~~----------~v~~~~~~l~~~  179 (210)
                      ...+ .+.++.++.++.          .+..+|+.++++
T Consensus       161 ~~~~-~~~i~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (202)
T cd04102         161 EQGN-AEEINLNCTNGRLLAAGSSDAVKLSRFFDKVIEK  198 (202)
T ss_pred             HhcC-CceEEEecCCcccccCCCccHHHHHHHHHHHHHh
Confidence            6666 777777777443          334555555544

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=7.2e-29  Score=172.38  Aligned_cols=156  Identities=20%  Similarity=0.313  Sum_probs=116.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +|+++|++|||||||+++|.+..+ ...+.++.+....  .+..  ..+.+.+|||||+.++...+..+++.+|++|+|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFEK--GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEEE--CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998753 4455566654332  2222  3578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH----HcCCCcEEEecCCCCCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA----YRGNIPYFETSAKEDCN  168 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~  168 (210)
                      |.+++.++.....|+..+.+... ....++|+++|+||+|+.+..    ..++......    ......++++||++|.|
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~p~iiv~NK~Dl~~~~----~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~g  151 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPD-IKHRRVPILFFANKMDLPDAL----TAVKITQLLGLENIKDKPWHIFASNALTGEG  151 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcc-cccCCCCEEEEEeCccccCCC----CHHHHHHHhCCccccCceEEEEEeeCCCCCc
Confidence            99999999888888777654311 112378999999999996532    1222222211    11124589999999999


Q ss_pred             hHHHHHHHHH
Q 028305          169 IDEAFLCVAE  178 (210)
Q Consensus       169 v~~~~~~l~~  178 (210)
                      ++++|++|.+
T Consensus       152 v~~~~~~l~~  161 (162)
T cd04157         152 LDEGVQWLQA  161 (162)
T ss_pred             hHHHHHHHhc
Confidence            9999999864

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=2.8e-28  Score=171.32  Aligned_cols=156  Identities=22%  Similarity=0.331  Sum_probs=118.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+++|++|+|||||++++..+.+.. +.++.+.+..  ....+  .+.+.+||+||++.+...+..+++.+|++++
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~   88 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVIL   88 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEE
Confidence            46899999999999999999999877764 4555554443  33343  4789999999999998888899999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH----HcCCCcEEEecCCCC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA----YRGNIPYFETSAKED  166 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~  166 (210)
                      |+|.++++++.....++..+.....   ..++|+++++||+|+.+.    ...++......    .....+++++||++|
T Consensus        89 V~D~s~~~~~~~~~~~l~~~~~~~~---~~~~p~viv~NK~Dl~~~----~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g  161 (174)
T cd04153          89 VIDSTDRERLPLTKEELYKMLAHED---LRKAVLLVLANKQDLKGA----MTPAEISESLGLTSIRDHTWHIQGCCALTG  161 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchh---hcCCCEEEEEECCCCCCC----CCHHHHHHHhCcccccCCceEEEecccCCC
Confidence            9999999888877776666644321   126899999999998652    12222222111    112257999999999


Q ss_pred             CChHHHHHHHHH
Q 028305          167 CNIDEAFLCVAE  178 (210)
Q Consensus       167 ~~v~~~~~~l~~  178 (210)
                      .|++++|++|.+
T Consensus       162 ~gi~e~~~~l~~  173 (174)
T cd04153         162 EGLPEGLDWIAS  173 (174)
T ss_pred             CCHHHHHHHHhc
Confidence            999999999975

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=3.7e-28  Score=168.49  Aligned_cols=154  Identities=25%  Similarity=0.356  Sum_probs=115.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      +|+++|++|+|||||+++|.+..+.. ..++.+...  ..+.. +..+.+.+||+||+..+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            58999999999999999999888753 345554433  22333 235789999999999888888888999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH--Hc---CCCcEEEecCCCCCC
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA--YR---GNIPYFETSAKEDCN  168 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~--~~---~~~~~~~~Sa~~~~~  168 (210)
                      .+++.++.....|+..+.+...   ..+.|+++|+||+|+....    ..+++.....  ..   ...+++++||++|.|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~g  149 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEH---IKGVPVVLLANKQDLPGAL----TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEG  149 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchh---hcCCCEEEEEECcccccCc----CHHHHHHHcCCcccCCCCcEEEEecccccCCC
Confidence            9999988888888777754321   1278999999999986421    1222222211  11   124699999999999


Q ss_pred             hHHHHHHHHH
Q 028305          169 IDEAFLCVAE  178 (210)
Q Consensus       169 v~~~~~~l~~  178 (210)
                      ++++|++|.+
T Consensus       150 v~~~~~~i~~  159 (160)
T cd04156         150 LAEAFRKLAS  159 (160)
T ss_pred             hHHHHHHHhc
Confidence            9999999864

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.96  E-value=4e-28  Score=169.39  Aligned_cols=157  Identities=19%  Similarity=0.244  Sum_probs=119.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      +|+++|++|||||||+++|.+. +...+.++.+...  ..+..+  .+.+.+||+||+..+...+..+++.+|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~--~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP--TKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE--EEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999976 6556667766543  334443  4789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc--cchHHHHHHHHHcC-CCcEEEecCCCC----
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV--VPQKKALEWCAYRG-NIPYFETSAKED----  166 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~Sa~~~----  166 (210)
                      .+++.+++.+..|+..+.+..   ...++|+++|+||+|+.......  .....+..++...+ ...++++||++|    
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~---~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~  152 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHP---RVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKK  152 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCc---cccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCc
Confidence            999999999888888876532   12378999999999997642111  11111223332222 256888999998    


Q ss_pred             --CChHHHHHHHHH
Q 028305          167 --CNIDEAFLCVAE  178 (210)
Q Consensus       167 --~~v~~~~~~l~~  178 (210)
                        .|+.+.|+||..
T Consensus       153 ~~~g~~~~~~wl~~  166 (167)
T cd04161         153 IDPSIVEGLRWLLA  166 (167)
T ss_pred             cccCHHHHHHHHhc
Confidence              899999999975

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.96  E-value=1.1e-27  Score=165.88  Aligned_cols=153  Identities=20%  Similarity=0.374  Sum_probs=117.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|||||||++++++..+. .+.++.+...  ..+.++  .+.+.+||+||+..+...+..+++.+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVV-TTIPTIGFNV--ETVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCcCcce--EEEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            6899999999999999999988743 4445554433  233343  4789999999999988888999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCCCCCh
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKEDCNI  169 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v  169 (210)
                      ++++.++.....|+..+.....   ..+.|+++|+||+|+....    ..++.......    ....+++++||++|.|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~---~~~~piiiv~nK~D~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  148 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEE---LKGVPLLIFANKQDLPGAL----SVSELIEKLGLEKILGRRWHIQPCSAVTGDGL  148 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcc---cCCCcEEEEeeccCCcccc----CHHHHHHhhChhhccCCcEEEEEeeCCCCCCH
Confidence            9999999988888777765432   2378999999999987542    12223222221    22467999999999999


Q ss_pred             HHHHHHHHH
Q 028305          170 DEAFLCVAE  178 (210)
Q Consensus       170 ~~~~~~l~~  178 (210)
                      +++|++|..
T Consensus       149 ~~~~~~l~~  157 (158)
T cd00878         149 DEGLDWLLQ  157 (158)
T ss_pred             HHHHHHHhh
Confidence            999999875

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.96  E-value=7.4e-28  Score=166.70  Aligned_cols=153  Identities=20%  Similarity=0.347  Sum_probs=112.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++++|||||++++..+.+.. +.++.+.+..  .+..  ..+.+.+|||||+..+...+..+++.+|++++|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            68999999999999999998776653 3455444432  2333  34789999999999998888999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecCCCCCCh
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSAKEDCNI  169 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v  169 (210)
                      ++++.++.....++..+.+..   ...++|+++|+||+|+.+..    ...++.......    ...+++++||++|.|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~---~~~~~piiiv~nK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi  148 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEE---ELKGAVLLVFANKQDMPGAL----SEAEISEKLGLSELKDRTWSIFKTSAIKGEGL  148 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhch---hhcCCcEEEEEeCCCCCCCC----CHHHHHHHhCccccCCCcEEEEEeeccCCCCH
Confidence            999888776666555443321   11268999999999986431    112222111110    1246999999999999


Q ss_pred             HHHHHHHHH
Q 028305          170 DEAFLCVAE  178 (210)
Q Consensus       170 ~~~~~~l~~  178 (210)
                      +++|++|.+
T Consensus       149 ~~l~~~l~~  157 (158)
T cd04151         149 DEGMDWLVN  157 (158)
T ss_pred             HHHHHHHhc
Confidence            999999975

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.96  E-value=8.4e-28  Score=167.87  Aligned_cols=154  Identities=23%  Similarity=0.368  Sum_probs=115.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcC------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKF------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +|+|+|++|+|||||+++|.+...      ...+.++.+...  ..+.++  ...+.+|||||++.+...+..+++.+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            589999999999999999975432      123344444343  334444  4789999999999998888889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc------CCCcEEEe
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR------GNIPYFET  161 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~  161 (210)
                      +++|+|.++++++.....|+..+.+...   ..++|+++|+||+|+.+.    ...++...+....      ...+++++
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ilv~NK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEA---LEGVPLLILANKQDLPDA----LSVEEIKEVFQDKAEEIGRRDCLVLPV  149 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChh---hcCCCEEEEEEccccccC----CCHHHHHHHhccccccccCCceEEEEe
Confidence            9999999998888888777777654321   227899999999998653    2223333333221      23579999


Q ss_pred             cCCCCCChHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~  178 (210)
                      ||++|.|+++++++|.+
T Consensus       150 Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         150 SALEGTGVREGIEWLVE  166 (167)
T ss_pred             eCCCCcCHHHHHHHHhc
Confidence            99999999999999975

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=2.8e-27  Score=168.61  Aligned_cols=158  Identities=23%  Similarity=0.384  Sum_probs=121.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|||||||++++.+..+. .+.++.+..  ...+.+++  ..+.+||+||+..+...+..+++.+|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~--~~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPT--SEELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            35789999999999999999999987764 444554433  23444554  67899999999988888888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---------------C
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---------------G  154 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---------------~  154 (210)
                      +|+|+++..++.....|+..+.....   ..+.|+++++||+|+..    ....+++...+...               .
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~---~~~~pvivv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEE---LANVPFLILGNKIDLPG----AVSEEELRQALGLYGTTTGKGVSLKVSGIR  164 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCcc---ccCCCEEEEEeCCCCCC----CcCHHHHHHHhCcccccccccccccccCce
Confidence            99999999888887777777764322   22689999999999864    23445555554321               2


Q ss_pred             CCcEEEecCCCCCChHHHHHHHHHH
Q 028305          155 NIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       155 ~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ...++++||++|.|++++|++|.+.
T Consensus       165 ~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         165 PIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             eEEEEEeEecCCCChHHHHHHHHhh
Confidence            2468999999999999999999875

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.

>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=99.95  E-value=2.9e-27  Score=165.99  Aligned_cols=160  Identities=27%  Similarity=0.467  Sum_probs=124.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+++|+.|||||||++++..+... ...|+.+...  ..+.+++  +.+.+||.+|+..++..+..++..+|++
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~--~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~i   85 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNI--EEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGI   85 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEEE--EEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhcccc-ccCccccccc--ceeeeCc--EEEEEEeccccccccccceeecccccee
Confidence            478999999999999999999999876544 3556665444  3444544  7799999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH-----cCCCcEEEecC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY-----RGNIPYFETSA  163 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa  163 (210)
                      |||+|.++++.+......+..+....   ...++|+++++||.|+.+..    ..+++......     .....++.+||
T Consensus        86 IfVvDssd~~~l~e~~~~L~~ll~~~---~~~~~piLIl~NK~D~~~~~----~~~~i~~~l~l~~l~~~~~~~v~~~sa  158 (175)
T PF00025_consen   86 IFVVDSSDPERLQEAKEELKELLNDP---ELKDIPILILANKQDLPDAM----SEEEIKEYLGLEKLKNKRPWSVFSCSA  158 (175)
T ss_dssp             EEEEETTGGGGHHHHHHHHHHHHTSG---GGTTSEEEEEEESTTSTTSS----THHHHHHHTTGGGTTSSSCEEEEEEBT
T ss_pred             EEEEecccceeecccccchhhhcchh---hcccceEEEEeccccccCcc----hhhHHHhhhhhhhcccCCceEEEeeec
Confidence            99999999988888776666665432   22378999999999987642    23333332211     23466999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~  180 (210)
                      .+|.|+.+.++||.+.+
T Consensus       159 ~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  159 KTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             TTTBTHHHHHHHHHHHH
T ss_pred             cCCcCHHHHHHHHHhcC
Confidence            99999999999999865

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 ....

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=2e-26  Score=171.87  Aligned_cols=150  Identities=28%  Similarity=0.480  Sum_probs=124.5

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-------------CeEEEEEEEeCCCcccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-------------DKLVTLQIWDTAGQERF   74 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~i~D~~g~~~~   74 (210)
                      .....+||+|+|+.|||||||+++|+++.+...+.++++.++....+.++             +..+.+.||||+|++.+
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErf   96 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERY   96 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhh
Confidence            34568999999999999999999999999988888898888776666654             35688999999999999


Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCC--------CCCCCCCEEEEEecCCCCCCCC-cc---cc
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADP--------GEHEACPFVLLGNKIDTDGGSS-RV---VP  142 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~--------~~~~~~p~ilv~~K~D~~~~~~-~~---~~  142 (210)
                      ..++..+++.+|++|+|||+++..+++.+..|+..+......        ....++|++||+||+|+..... +.   +.
T Consensus        97 rsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~  176 (334)
T PLN00023         97 KDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNL  176 (334)
T ss_pred             hhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccccc
Confidence            999999999999999999999999999999999999876421        0113689999999999965421 22   36


Q ss_pred             hHHHHHHHHHcCCCc
Q 028305          143 QKKALEWCAYRGNIP  157 (210)
Q Consensus       143 ~~~~~~~~~~~~~~~  157 (210)
                      .+++++++...+..+
T Consensus       177 ~e~a~~~A~~~g~l~  191 (334)
T PLN00023        177 VDAARQWVEKQGLLP  191 (334)
T ss_pred             HHHHHHHHHHcCCCc
Confidence            789999999887433

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.95  E-value=5.5e-27  Score=166.07  Aligned_cols=158  Identities=20%  Similarity=0.328  Sum_probs=119.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||++++.++.+.. +.++.+..  ...+..++  +.+.+||+||+..+...+..+++.+|+++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPT--SEELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccc--eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            456999999999999999999999876642 33443332  23333433  77999999999998888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH-----------cCCCcE
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY-----------RGNIPY  158 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~-----------~~~~~~  158 (210)
                      +|+|++++.++.....++..+.+..   ...++|+++|+||+|+...    ...+++.....-           .+...+
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~---~~~~~piliv~NK~Dl~~~----~~~~~i~~~l~l~~~~~~~~~~~~~~~~i  162 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDE---ELATVPFLILGNKIDAPYA----ASEDELRYALGLTNTTGSKGKVGVRPLEV  162 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCh---hhcCCCEEEEEeCccccCC----CCHHHHHHHcCCCcccccccccCCceeEE
Confidence            9999999998888777776665421   1127899999999998642    333444333311           124569


Q ss_pred             EEecCCCCCChHHHHHHHHHH
Q 028305          159 FETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +++||++|.|++++++||..+
T Consensus       163 ~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      163 FMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EEeecccCCChHHHHHHHHhh
Confidence            999999999999999999865

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.95  E-value=4.3e-29  Score=167.05  Aligned_cols=169  Identities=30%  Similarity=0.536  Sum_probs=157.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      -+..+|++++|..++||||++++++.+-|...+..+++.++....+.++.+.+.+.+||++|+++|..+...|++.+.+.
T Consensus        17 ~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~   96 (246)
T KOG4252|consen   17 YERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQAS   96 (246)
T ss_pred             hhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccce
Confidence            45789999999999999999999999999999999999999999999998999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++||+-++..||+....|+..+.....     .+|.++|-||+|+.++  ..+..++++.+++... ..++.+|++...|
T Consensus        97 vLVFSTTDr~SFea~~~w~~kv~~e~~-----~IPtV~vqNKIDlved--s~~~~~evE~lak~l~-~RlyRtSvked~N  168 (246)
T KOG4252|consen   97 VLVFSTTDRYSFEATLEWYNKVQKETE-----RIPTVFVQNKIDLVED--SQMDKGEVEGLAKKLH-KRLYRTSVKEDFN  168 (246)
T ss_pred             EEEEecccHHHHHHHHHHHHHHHHHhc-----cCCeEEeeccchhhHh--hhcchHHHHHHHHHhh-hhhhhhhhhhhhh
Confidence            999999999999999999999988766     8899999999999876  6777888888888877 8899999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      +.++|..|++++.+..+
T Consensus       169 V~~vF~YLaeK~~q~~k  185 (246)
T KOG4252|consen  169 VMHVFAYLAEKLTQQKK  185 (246)
T ss_pred             hHHHHHHHHHHHHHHHH
Confidence            99999999999887655

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.95  E-value=9.7e-27  Score=160.86  Aligned_cols=154  Identities=29%  Similarity=0.466  Sum_probs=118.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      .|+++|++|+|||||+++|.+..+...+.++.+.+...  ....+  +.+.+||+||+..+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            37999999999999999999998887777777766543  33333  789999999999999889999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH----HcCCCcEEEecCCCCCCh
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA----YRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~v  169 (210)
                      ++++.++.....|+..+.....   ..++|+++|+||+|+.+...    .++......    .....+++++|+++|.|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~---~~~~p~iiv~nK~D~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  149 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPS---LEGIPLLVLGNKNDLPGALS----VDELIEQMNLKSITDREVSCYSISCKEKTNI  149 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChh---hcCCCEEEEEeCccccCCcC----HHHHHHHhCcccccCCceEEEEEEeccCCCh
Confidence            9999888887777776654211   12679999999999865321    111111110    112367899999999999


Q ss_pred             HHHHHHHHH
Q 028305          170 DEAFLCVAE  178 (210)
Q Consensus       170 ~~~~~~l~~  178 (210)
                      ++++++|.+
T Consensus       150 ~~l~~~l~~  158 (159)
T cd04159         150 DIVLDWLIK  158 (159)
T ss_pred             HHHHHHHhh
Confidence            999999975

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.

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=9e-26  Score=158.16  Aligned_cols=143  Identities=34%  Similarity=0.564  Sum_probs=124.8

Q ss_pred             CcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhc
Q 028305           35 NKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQA  114 (210)
Q Consensus        35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~  114 (210)
                      +.|...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++.+|++|+|||++++.+|+.+..|+..+....
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            45667788999999988888899999999999999999999999999999999999999999999999999999887654


Q ss_pred             CCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          115 DPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       115 ~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ..    ++|+++|+||+|+.+.  +.+..+++..++...+ ..++++||++|.|++++|++|++.+.+..
T Consensus        83 ~~----~~piilVgNK~DL~~~--~~v~~~e~~~~~~~~~-~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         83 GK----DVIIALVGNKTDLGDL--RKVTYEEGMQKAQEYN-TMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             CC----CCeEEEEEECcccccc--cCCCHHHHHHHHHHcC-CEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            22    6899999999999753  4566777888887776 68999999999999999999999987643

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.95  E-value=3.7e-26  Score=159.68  Aligned_cols=156  Identities=19%  Similarity=0.138  Sum_probs=106.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc---------ccccccC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL---------GSAFYRG   84 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~---------~~~~~~~   84 (210)
                      +|+++|++|+|||||+++|.+..+.....+..+.+........  ..+.+.+|||||+......         .......
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY--KYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc--CceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            7999999999999999999988765333333333333333333  3478999999997421110         0011123


Q ss_pred             CcEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           85 ADCCVLVYDVNVQKTF--ESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~--~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      +|++++|+|++++.++  +....|+..+....     .+.|+++|+||+|+.+..  ..  .+...+... ...+++++|
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-----~~~pvilv~NK~Dl~~~~--~~--~~~~~~~~~-~~~~~~~~S  149 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-----KNKPVIVVLNKIDLLTFE--DL--SEIEEEEEL-EGEEVLKIS  149 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhhc-----CcCCeEEEEEccccCchh--hH--HHHHHhhhh-ccCceEEEE
Confidence            6899999999987653  55556777665432     267999999999996532  11  113444443 347899999


Q ss_pred             CCCCCChHHHHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~  181 (210)
                      |++|.|++++|+++.+.++
T Consensus       150 a~~~~gi~~l~~~l~~~~~  168 (168)
T cd01897         150 TLTEEGVDEVKNKACELLL  168 (168)
T ss_pred             ecccCCHHHHHHHHHHHhC
Confidence            9999999999999998763

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.

>cd04171 SelB SelB subfamily

Probab=99.94  E-value=3.6e-26  Score=159.04  Aligned_cols=155  Identities=22%  Similarity=0.151  Sum_probs=106.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC---cCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN---KFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +.|+++|++|+|||||+++|.+.   .+.....++.+.+.........+ ...+.+|||||++++......+++.+|+++
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            36899999999999999999863   23333334444444444444432 357999999999988777777788999999


Q ss_pred             EEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc--CCCcEEEecCC
Q 028305           90 LVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR--GNIPYFETSAK  164 (210)
Q Consensus        90 ~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~  164 (210)
                      +|+|+++   +.+.+.+    ..+... .     ..|+++|+||+|+.+........++........  ...+++++||+
T Consensus        80 ~V~d~~~~~~~~~~~~~----~~~~~~-~-----~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  149 (164)
T cd04171          80 LVVAADEGIMPQTREHL----EILELL-G-----IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAV  149 (164)
T ss_pred             EEEECCCCccHhHHHHH----HHHHHh-C-----CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCC
Confidence            9999987   3333322    112111 1     238999999999975321122233444444442  24789999999


Q ss_pred             CCCChHHHHHHHHH
Q 028305          165 EDCNIDEAFLCVAE  178 (210)
Q Consensus       165 ~~~~v~~~~~~l~~  178 (210)
                      +|.|++++++.+..
T Consensus       150 ~~~~v~~l~~~l~~  163 (164)
T cd04171         150 TGEGIEELKEYLDE  163 (164)
T ss_pred             CCcCHHHHHHHHhh
Confidence            99999999998864

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

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=4.7e-26  Score=160.78  Aligned_cols=155  Identities=17%  Similarity=0.205  Sum_probs=110.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc-------CCCcccc------eeeeEEEEEEE--Ee---CCeEEEEEEEeCCCccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK-------FSQQYKA------TIGADFVTKEL--QM---DDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~-------~~~~~~~------~~~~~~~~~~~--~~---~~~~~~~~i~D~~g~~~~~   75 (210)
                      +|+++|++++|||||+++|++..       +...+.+      +.+.+......  .+   ++..+.+.+|||||++++.
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            79999999999999999998642       1111111      11222222222  22   5667889999999999999


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                      ..+..+++.+|++|+|+|+++..+......|.... .       .++|+++|+||+|+.+..    ..+....+++..+.
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~-------~~~~iiiv~NK~Dl~~~~----~~~~~~~~~~~~~~  149 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL-E-------NNLEIIPVINKIDLPSAD----PERVKQQIEDVLGL  149 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH-H-------cCCCEEEEEECCCCCcCC----HHHHHHHHHHHhCC
Confidence            99899999999999999999876666655554322 1       167999999999986421    12222344444442


Q ss_pred             --CcEEEecCCCCCChHHHHHHHHHHH
Q 028305          156 --IPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       156 --~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                        ..++++||++|.|++++|++|.+.+
T Consensus       150 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         150 DPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             CcccEEEeeccCCCCHHHHHHHHHhhC
Confidence              2489999999999999999998764

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.94  E-value=5.6e-26  Score=149.92  Aligned_cols=166  Identities=20%  Similarity=0.297  Sum_probs=129.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ++..++|+++|..||||||++++|.+... ....|+.+.+.  +...+  ..+.+++||.+|+...++.|.+|+.++|++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~~-~~i~pt~gf~I--ktl~~--~~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGEDT-DTISPTLGFQI--KTLEY--KGYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCCc-cccCCccceee--EEEEe--cceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            56799999999999999999999997663 34556665444  33333  448899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCccc--chHHHHHHHHHcCCCcEEEecCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVV--PQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      |+|+|.+++..++.....+..+..   .....+.|+++++||.|+.++-....  ..-+...+++.. ..+++.+|+.+|
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~---eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~-~~~l~~cs~~tg  163 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLV---EERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSH-HWRLVKCSAVTG  163 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHh---hhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhcccc-CceEEEEecccc
Confidence            999999999888887666666554   22233679999999999985432221  112334444433 488999999999


Q ss_pred             CChHHHHHHHHHHHHhc
Q 028305          167 CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~  183 (210)
                      +++.+.++|++..+.+.
T Consensus       164 e~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  164 EDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             ccHHHHHHHHHHHHHHH
Confidence            99999999999999873

>cd01898 Obg Obg subfamily

Probab=99.94  E-value=4.6e-26  Score=159.52  Aligned_cols=160  Identities=20%  Similarity=0.118  Sum_probs=111.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc----ccccccc---ccCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF----QSLGSAF---YRGAD   86 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~~---~~~~d   86 (210)
                      +|+++|.+|+|||||+++|.+........+..+.......+...+ ...+.+|||||..+.    ..+...+   +..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            689999999999999999986554322222233333333333333 247999999996421    1222222   44699


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           87 CCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        87 ~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      ++++|+|++++ .+++.+..|...+......  ..++|+++|+||+|+.+.   ....+....+.......+++++|+++
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~--~~~~p~ivv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~  155 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPE--LLEKPRIVVLNKIDLLDE---EELFELLKELLKELWGKPVFPISALT  155 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCcc--ccccccEEEEEchhcCCc---hhhHHHHHHHHhhCCCCCEEEEecCC
Confidence            99999999999 7888888888888765321  126799999999998653   22233444445443347899999999


Q ss_pred             CCChHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEI  179 (210)
Q Consensus       166 ~~~v~~~~~~l~~~  179 (210)
                      +.|++++|+++.+.
T Consensus       156 ~~gi~~l~~~i~~~  169 (170)
T cd01898         156 GEGLDELLRKLAEL  169 (170)
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999999875

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.94  E-value=1.6e-25  Score=170.58  Aligned_cols=168  Identities=20%  Similarity=0.128  Sum_probs=122.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-------cccccccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-------FQSLGSAFYR   83 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~   83 (210)
                      -...|+|+|.||||||||+++|.+........+.++..+....+.+.+ ...+.+||+||..+       +.......++
T Consensus       157 ~~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~~~~gLg~~flrhie  235 (335)
T PRK12299        157 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGASEGAGLGHRFLKHIE  235 (335)
T ss_pred             ccCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCCccccHHHHHHHHhh
Confidence            346799999999999999999997654433344555566556565532 24689999999642       1122233456


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .++++++|+|+++.++++.+..|..++..+...  ..++|+++|+||+|+.+.  .....+....++...+ .+++++||
T Consensus       236 ~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~--L~~kp~IIV~NKiDL~~~--~~~~~~~~~~~~~~~~-~~i~~iSA  310 (335)
T PRK12299        236 RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPE--LADKPRILVLNKIDLLDE--EEEREKRAALELAALG-GPVFLISA  310 (335)
T ss_pred             hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhh--cccCCeEEEEECcccCCc--hhHHHHHHHHHHHhcC-CCEEEEEc
Confidence            799999999999888899988998888766332  126799999999999754  2223333444444444 78999999


Q ss_pred             CCCCChHHHHHHHHHHHHhcc
Q 028305          164 KEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +++.|+++++++|.+.+.+..
T Consensus       311 ktg~GI~eL~~~L~~~l~~~~  331 (335)
T PRK12299        311 VTGEGLDELLRALWELLEEAR  331 (335)
T ss_pred             CCCCCHHHHHHHHHHHHHhhh
Confidence            999999999999999887643

>cd04155 Arl3 Arl3 subfamily

Probab=99.94  E-value=3.8e-26  Score=160.39  Aligned_cols=159  Identities=23%  Similarity=0.377  Sum_probs=115.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +....++|+++|++|+|||||++++.+..+. .+.++.+...  ..+..++  ..+.+||++|+..+...+..+++.+|+
T Consensus        10 ~~~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~   84 (173)
T cd04155          10 KSSEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDC   84 (173)
T ss_pred             ccCCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCE
Confidence            3456899999999999999999999987654 2344444332  3334444  678999999998888888888899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSA  163 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa  163 (210)
                      +++|+|+++..++.....++..+.....   ..++|+++++||+|+....    ..+++.......    ....++++||
T Consensus        85 ii~v~D~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~----~~~~i~~~l~~~~~~~~~~~~~~~Sa  157 (173)
T cd04155          85 LIYVIDSADKKRLEEAGAELVELLEEEK---LAGVPVLVFANKQDLATAA----PAEEIAEALNLHDLRDRTWHIQACSA  157 (173)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhChh---hcCCCEEEEEECCCCccCC----CHHHHHHHcCCcccCCCeEEEEEeEC
Confidence            9999999998888877777666654321   2268999999999986532    112222111111    1124789999


Q ss_pred             CCCCChHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAE  178 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~  178 (210)
                      ++|.|++++|++|++
T Consensus       158 ~~~~gi~~~~~~l~~  172 (173)
T cd04155         158 KTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCCCCHHHHHHHHhc
Confidence            999999999999975

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.94  E-value=4.2e-25  Score=152.46  Aligned_cols=158  Identities=30%  Similarity=0.511  Sum_probs=126.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      ++||+++|.+|+|||||++++....+...+.++.+.+.....+..++..+.+.+||+||+.++...+....+.++.++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            47999999999999999999998887777777888787777677777778899999999998888888888899999999


Q ss_pred             EECCCh-hhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           92 YDVNVQ-KTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        92 ~d~~~~-~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|.... .++.... .|...+......    +.|+++++||+|+....    ............+..+++++||++|.|+
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~----~~p~ivv~nK~D~~~~~----~~~~~~~~~~~~~~~~~~~~sa~~~~gv  152 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAES----NVPIILVGNKIDLRDAK----LKTHVAFLFAKLNGEPIIPLSAETGKNI  152 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhccc----CCcEEEEEEcccCCcch----hhHHHHHHHhhccCCceEEeecCCCCCH
Confidence            999877 6666654 666666655432    67999999999997532    2333334444455578999999999999


Q ss_pred             HHHHHHHH
Q 028305          170 DEAFLCVA  177 (210)
Q Consensus       170 ~~~~~~l~  177 (210)
                      .+++++|.
T Consensus       153 ~~~~~~l~  160 (161)
T TIGR00231       153 DSAFKIVE  160 (161)
T ss_pred             HHHHHHhh
Confidence            99999863

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.94  E-value=7.3e-26  Score=153.96  Aligned_cols=135  Identities=23%  Similarity=0.294  Sum_probs=98.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc-----cccccccccccCCcEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE-----RFQSLGSAFYRGADCC   88 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----~~~~~~~~~~~~~d~v   88 (210)
                      ||+++|++|+|||||+++|.+..+.  +.++.+.++       .     -.+|||||+.     .+.... ..++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~~~~-------~-----~~~iDt~G~~~~~~~~~~~~~-~~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQAVEY-------N-----DGAIDTPGEYVENRRLYSALI-VTAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--cccceeEEE-------c-----CeeecCchhhhhhHHHHHHHH-HHhhcCCEE
Confidence            8999999999999999999977652  223332222       1     1589999972     223222 347899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++.. ..|...+          ..|+++|+||+|+.+   .....++...+++..+..+++++||++|.|
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~----------~~p~ilv~NK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  132 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF----------VKPVIGLVTKIDLAE---ADVDIERAKELLETAGAEPIFEISSVDEQG  132 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc----------cCCeEEEEEeeccCC---cccCHHHHHHHHHHcCCCcEEEEecCCCCC
Confidence            99999999988754 2333221          239999999999864   233456667777776645899999999999


Q ss_pred             hHHHHHHHH
Q 028305          169 IDEAFLCVA  177 (210)
Q Consensus       169 v~~~~~~l~  177 (210)
                      ++++|+++.
T Consensus       133 i~~l~~~l~  141 (142)
T TIGR02528       133 LEALVDYLN  141 (142)
T ss_pred             HHHHHHHHh
Confidence            999999874

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.

>cd01878 HflX HflX subfamily

Probab=99.94  E-value=2.1e-25  Score=160.63  Aligned_cols=158  Identities=23%  Similarity=0.211  Sum_probs=111.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc---------ccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF---------QSLGS   79 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~   79 (210)
                      ++..++|+|+|++|||||||++++.+..+.....+..+.+.....+.+.+. ..+.+|||||..+.         ... .
T Consensus        38 ~~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~-~  115 (204)
T cd01878          38 RSGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRST-L  115 (204)
T ss_pred             hcCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHH-H
Confidence            355689999999999999999999987654333333334444444444442 36999999997321         111 1


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      ..+..+|++++|+|++++.++.....|...+.....    .++|+++|+||+|+.+...  .     ...... ...+++
T Consensus       116 ~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~----~~~~viiV~NK~Dl~~~~~--~-----~~~~~~-~~~~~~  183 (204)
T cd01878         116 EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGA----EDIPMILVLNKIDLLDDEE--L-----EERLEA-GRPDAV  183 (204)
T ss_pred             HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCc----CCCCEEEEEEccccCChHH--H-----HHHhhc-CCCceE
Confidence            225679999999999998888777666666654322    2679999999999965421  1     122333 347899


Q ss_pred             EecCCCCCChHHHHHHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ++||++|.|+++++++|.+.+
T Consensus       184 ~~Sa~~~~gi~~l~~~L~~~~  204 (204)
T cd01878         184 FISAKTGEGLDELLEAIEELL  204 (204)
T ss_pred             EEEcCCCCCHHHHHHHHHhhC
Confidence            999999999999999998753

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.93  E-value=8.4e-25  Score=163.52  Aligned_cols=167  Identities=18%  Similarity=0.102  Sum_probs=112.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc--------cccccccC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS--------LGSAFYRG   84 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~   84 (210)
                      +|+++|.||+|||||+|+|++..... ...+.++..........++  .++.+|||||......        ....+++.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999877542 2223333333333322233  5699999999654311        12345788


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++++|+|.++..+.+  ..+...+...       +.|+++|+||+|+.+.   ....+....+....+..+++++||+
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~~-------~~p~ilV~NK~Dl~~~---~~~~~~~~~~~~~~~~~~v~~iSA~  147 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQNL-------KRPVVLTRNKLDNKFK---DKLLPLIDKYAILEDFKDIVPISAL  147 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHhc-------CCCEEEEEECeeCCCH---HHHHHHHHHHHhhcCCCceEEEecC
Confidence            99999999999876654  2333333321       6799999999999642   2223344444444443479999999


Q ss_pred             CCCChHHHHHHHHHHHHhcccccccCCCCCcce
Q 028305          165 EDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      +|.|++++++++.+.+.....   .++++..+.
T Consensus       148 ~g~gi~~L~~~l~~~l~~~~~---~~~~~~~t~  177 (270)
T TIGR00436       148 TGDNTSFLAAFIEVHLPEGPF---RYPEDYVTD  177 (270)
T ss_pred             CCCCHHHHHHHHHHhCCCCCC---CCCCcccCC
Confidence            999999999999988755433   455555444

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.93  E-value=5.3e-24  Score=154.98  Aligned_cols=170  Identities=36%  Similarity=0.544  Sum_probs=135.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|+.|+|||||+++|..+.+...+.++.+..+........+..+.+.+|||+|++++...+..++..+++++++
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            49999999999999999999999999988888887777777776666578999999999999999999999999999999


Q ss_pred             EECCC-hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHc--CCCcE
Q 028305           92 YDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYR--GNIPY  158 (210)
Q Consensus        92 ~d~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~--~~~~~  158 (210)
                      +|..+ ..+++....|...+.....    .+.|+++|+||+|+.....          +..............  ....+
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~----~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAP----DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPAL  160 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCC----CCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccce
Confidence            99999 4555666788888877653    2679999999999976532          112222222222222  22449


Q ss_pred             EEecCC--CCCChHHHHHHHHHHHHhccc
Q 028305          159 FETSAK--EDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       159 ~~~Sa~--~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++|++  .+.++.++|..+...+.+...
T Consensus       161 ~~~s~~~~~~~~v~~~~~~~~~~~~~~~~  189 (219)
T COG1100         161 LETSAKSLTGPNVNELFKELLRKLLEEIE  189 (219)
T ss_pred             eEeecccCCCcCHHHHHHHHHHHHHHhhh
Confidence            999999  999999999999999976544

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.93  E-value=2e-24  Score=150.83  Aligned_cols=159  Identities=21%  Similarity=0.234  Sum_probs=109.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      .|+++|++|+|||||+++|....+.....++.+.+.....+..+ +....+.+|||||+..+...+...+..+|++++|+
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            48999999999999999999887765544445444433444433 13567999999999888888888889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH-----HcCCCcEEEecCCCCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA-----YRGNIPYFETSAKEDC  167 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~  167 (210)
                      |+++........ .+..+..       .++|+++|+||+|+..... ....+.......     .....+++++|+++|.
T Consensus        82 d~~~~~~~~~~~-~~~~~~~-------~~~p~ivv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  152 (168)
T cd01887          82 AADDGVMPQTIE-AIKLAKA-------ANVPFIVALNKIDKPNANP-ERVKNELSELGLQGEDEWGGDVQIVPTSAKTGE  152 (168)
T ss_pred             ECCCCccHHHHH-HHHHHHH-------cCCCEEEEEEceecccccH-HHHHHHHHHhhccccccccCcCcEEEeecccCC
Confidence            998753222211 1122222       1679999999999874321 111112211111     1123689999999999


Q ss_pred             ChHHHHHHHHHHHH
Q 028305          168 NIDEAFLCVAEIAL  181 (210)
Q Consensus       168 ~v~~~~~~l~~~~~  181 (210)
                      |+++++++|.+...
T Consensus       153 gi~~l~~~l~~~~~  166 (168)
T cd01887         153 GIDDLLEAILLLAE  166 (168)
T ss_pred             CHHHHHHHHHHhhh
Confidence            99999999987653

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.

>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=3.6e-25  Score=149.90  Aligned_cols=148  Identities=18%  Similarity=0.245  Sum_probs=106.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc------ccccccc--cC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ------SLGSAFY--RG   84 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~--~~   84 (210)
                      ++|+++|.||+|||||+|+|++........|+++.+.....+.+.+  ..+.++|+||--.+.      .....++  ..
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            5899999999999999999999887767788888888888888877  568888999933222      1122233  57


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      .|++++|+|.++.+.-..   ...++...       ++|+++|+||+|+.......+   +...+.+..+ ++++++||+
T Consensus        79 ~D~ii~VvDa~~l~r~l~---l~~ql~e~-------g~P~vvvlN~~D~a~~~g~~i---d~~~Ls~~Lg-~pvi~~sa~  144 (156)
T PF02421_consen   79 PDLIIVVVDATNLERNLY---LTLQLLEL-------GIPVVVVLNKMDEAERKGIEI---DAEKLSERLG-VPVIPVSAR  144 (156)
T ss_dssp             SSEEEEEEEGGGHHHHHH---HHHHHHHT-------TSSEEEEEETHHHHHHTTEEE----HHHHHHHHT-S-EEEEBTT
T ss_pred             CCEEEEECCCCCHHHHHH---HHHHHHHc-------CCCEEEEEeCHHHHHHcCCEE---CHHHHHHHhC-CCEEEEEeC
Confidence            899999999987543322   33333332       789999999999865322223   3455566667 899999999


Q ss_pred             CCCChHHHHHHH
Q 028305          165 EDCNIDEAFLCV  176 (210)
Q Consensus       165 ~~~~v~~~~~~l  176 (210)
                      ++.|++++++.|
T Consensus       145 ~~~g~~~L~~~I  156 (156)
T PF02421_consen  145 TGEGIDELKDAI  156 (156)
T ss_dssp             TTBTHHHHHHHH
T ss_pred             CCcCHHHHHhhC
Confidence            999999999875

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 ....

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.93  E-value=2.8e-24  Score=148.65  Aligned_cols=148  Identities=22%  Similarity=0.240  Sum_probs=107.9

Q ss_pred             EEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc------ccccc--cCCcEE
Q 028305           17 VLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL------GSAFY--RGADCC   88 (210)
Q Consensus        17 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--~~~d~v   88 (210)
                      |+|.+|+|||||++++.+......+.++.+.+.....+.+++  ..+.+|||||+..+...      ...++  ..+|++
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            589999999999999998765544455666666566666665  56899999998765542      34445  489999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|+|.+++....   .+...+...       ++|+++|+||+|+.....   ...+...+....+ .+++++|+.+|.|
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~~-------~~~~iiv~NK~Dl~~~~~---~~~~~~~~~~~~~-~~~~~iSa~~~~~  144 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLEL-------GLPVVVALNMIDEAEKRG---IKIDLDKLSELLG-VPVVPTSARKGEG  144 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHHc-------CCCEEEEEehhhhccccc---chhhHHHHHHhhC-CCeEEEEccCCCC
Confidence            9999998865432   333333321       679999999999975421   1223345555555 7899999999999


Q ss_pred             hHHHHHHHHHHH
Q 028305          169 IDEAFLCVAEIA  180 (210)
Q Consensus       169 v~~~~~~l~~~~  180 (210)
                      +.++++++.+.+
T Consensus       145 ~~~l~~~l~~~~  156 (158)
T cd01879         145 IDELKDAIAELA  156 (158)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.92  E-value=4.8e-24  Score=162.47  Aligned_cols=163  Identities=21%  Similarity=0.146  Sum_probs=117.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc----ccccc---ccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ----SLGSA---FYR   83 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~~~~---~~~   83 (210)
                      -...|+|+|.||||||||+++|..........+.++.......+.+++ ...+.+||+||..+-.    .+...   .+.
T Consensus       156 ~~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhie  234 (329)
T TIGR02729       156 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIE  234 (329)
T ss_pred             ccccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHH
Confidence            356899999999999999999997654333333444555555555543 3568999999964321    22233   345


Q ss_pred             CCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           84 GADCCVLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        84 ~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      .++++++|+|+++.   ++++.+..|..++..+...  ..+.|+++|+||+|+.+.   ....+....+.+..+ .++++
T Consensus       235 rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~--l~~kp~IIV~NK~DL~~~---~~~~~~~~~l~~~~~-~~vi~  308 (329)
T TIGR02729       235 RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPE--LAEKPRIVVLNKIDLLDE---EELAELLKELKKALG-KPVFP  308 (329)
T ss_pred             hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhh--hccCCEEEEEeCccCCCh---HHHHHHHHHHHHHcC-CcEEE
Confidence            69999999999986   6778888888877665321  126799999999999754   222344455555555 78999


Q ss_pred             ecCCCCCChHHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +||+++.|+++++++|.+.+
T Consensus       309 iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       309 ISALTGEGLDELLYALAELL  328 (329)
T ss_pred             EEccCCcCHHHHHHHHHHHh
Confidence            99999999999999998764

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.92  E-value=5.7e-24  Score=163.22  Aligned_cols=170  Identities=21%  Similarity=0.265  Sum_probs=115.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc-cccc-------c
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF-QSLG-------S   79 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-~~~~-------~   79 (210)
                      +++.++|+++|.+|+|||||+|+|++..+.. ...+.++.+.....+..++  .++.+|||||..+. ..+.       .
T Consensus        49 ~~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~  126 (339)
T PRK15494         49 NQKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAW  126 (339)
T ss_pred             ccceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHH
Confidence            4567899999999999999999999887652 1222333444444555555  46899999997432 2221       1


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC-CCc
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG-NIP  157 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~-~~~  157 (210)
                      ..+..+|++++|+|..+  ++..... |+..+...       +.|.++|+||+|+.+.     ...++...+.... ...
T Consensus       127 ~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~-------~~p~IlViNKiDl~~~-----~~~~~~~~l~~~~~~~~  192 (339)
T PRK15494        127 SSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL-------NIVPIFLLNKIDIESK-----YLNDIKAFLTENHPDSL  192 (339)
T ss_pred             HHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc-------CCCEEEEEEhhcCccc-----cHHHHHHHHHhcCCCcE
Confidence            23678999999999765  3444433 33343322       4577899999998642     1344445544433 357


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhcccccccCCCCCcce
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      ++++||++|.|++++|++|.+.+....+   .|+++..|.
T Consensus       193 i~~iSAktg~gv~eL~~~L~~~l~~~~~---~~~~~~~td  229 (339)
T PRK15494        193 LFPISALSGKNIDGLLEYITSKAKISPW---LYAEDDITD  229 (339)
T ss_pred             EEEEeccCccCHHHHHHHHHHhCCCCCC---CCCCCCCCC
Confidence            9999999999999999999988876654   666666554

>cd01889 SelB_euk SelB subfamily

Probab=99.92  E-value=2.3e-24  Score=153.74  Aligned_cols=161  Identities=20%  Similarity=0.117  Sum_probs=104.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC----cCC---CcccceeeeEEEEEEEEeC------------CeEEEEEEEeCCCccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN----KFS---QQYKATIGADFVTKELQMD------------DKLVTLQIWDTAGQER   73 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~----~~~---~~~~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~g~~~   73 (210)
                      ++|+++|++|+|||||+++|+..    .+.   ....++.+.+.......+.            +....+.+|||||+..
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    111   1122233333333223222            3357899999999876


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH-H
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA-Y  152 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~-~  152 (210)
                      +........+.+|++++|+|.++.........+.  +....      ++|+++|+||+|+..........++...... .
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~~------~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~  152 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEIL------CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKT  152 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHHc------CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHH
Confidence            6554445566789999999998754433322221  11111      5699999999998743222222333332211 1


Q ss_pred             -----cCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          153 -----RGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       153 -----~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                           ....+++++||++|.|+++++++|.+.+.
T Consensus       153 ~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         153 LEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             HHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence                 23478999999999999999999988765

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.92  E-value=4.8e-24  Score=170.67  Aligned_cols=166  Identities=22%  Similarity=0.194  Sum_probs=117.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----------ccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----------FQSLG   78 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~   78 (210)
                      ...++|+++|.+|+|||||+++|++.... ....++++.+.....+..++.  .+.+|||||..+          +....
T Consensus       209 ~~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~  286 (472)
T PRK03003        209 GGPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLR  286 (472)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHH
Confidence            35799999999999999999999987653 345566666666666777664  467999999532          11111


Q ss_pred             -cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           79 -SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        79 -~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                       ..+++.+|++++|+|++++.++..+. ++..+..       .++|+++|+||+|+.+........+++..........+
T Consensus       287 ~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~-------~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~  358 (472)
T PRK03003        287 THAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE-------AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAP  358 (472)
T ss_pred             HHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH-------cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCC
Confidence             23568899999999999987777653 3333332       16799999999999753222222233333222233478


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++++||++|.|++++|+.+.+.+.+...
T Consensus       359 ~~~~SAk~g~gv~~lf~~i~~~~~~~~~  386 (472)
T PRK03003        359 RVNISAKTGRAVDKLVPALETALESWDT  386 (472)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999988765544

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.92  E-value=1.4e-23  Score=143.75  Aligned_cols=154  Identities=47%  Similarity=0.767  Sum_probs=117.5

Q ss_pred             EEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECC
Q 028305           17 VLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        17 v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                      ++|++|+|||||++++.+... .....++. .+..............+.+||+||...+.......++.+|++++|+|++
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            589999999999999998777 44444454 6676777777777889999999998888877788889999999999999


Q ss_pred             ChhhHHHHHHHHHHHH-HhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHH
Q 028305           96 VQKTFESLQNWREEFL-KQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus        96 ~~~s~~~~~~~~~~l~-~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ++.+......|+.... ....    .++|+++|+||+|+.....  ................+++++|+.++.|++++++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~----~~~~~ivv~nk~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  153 (157)
T cd00882          80 DRESFENVKEWLLLILINKEG----ENIPIILVGNKIDLPEERV--VSEEELAEQLAKELGVPYFETSAKTGENVEELFE  153 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhcc----CCCcEEEEEeccccccccc--hHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHH
Confidence            9988888877632222 2222    2789999999999975421  1111112233344458999999999999999999


Q ss_pred             HHH
Q 028305          175 CVA  177 (210)
Q Consensus       175 ~l~  177 (210)
                      +|.
T Consensus       154 ~l~  156 (157)
T cd00882         154 ELA  156 (157)
T ss_pred             HHh
Confidence            986

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.92  E-value=3.1e-24  Score=153.28  Aligned_cols=162  Identities=15%  Similarity=0.160  Sum_probs=109.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh--CcCCCcc------------cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY--NKFSQQY------------KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG   78 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   78 (210)
                      .+|+++|.+++|||||+++|+.  +.+....            ..+.+.+.......++.....+.+|||||++++....
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            5899999999999999999997  4443322            1122333333334444456789999999999999999


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-----
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-----  153 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-----  153 (210)
                      ..+++.+|++++|+|+++.. +.....++..+..       .++|+++|+||+|+.... .....++...+....     
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~-------~~~p~iiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~  153 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE-------LGLKPIVVINKIDRPDAR-PEEVVDEVFDLFIELGATEE  153 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH-------cCCCEEEEEECCCCCCCC-HHHHHHHHHHHHHHhCCccc
Confidence            99999999999999998742 2222233333322       167999999999996532 222344444444322     


Q ss_pred             -CCCcEEEecCCCCCChHHH------HHHHHHHHHhc
Q 028305          154 -GNIPYFETSAKEDCNIDEA------FLCVAEIALKN  183 (210)
Q Consensus       154 -~~~~~~~~Sa~~~~~v~~~------~~~l~~~~~~~  183 (210)
                       ...+++++||++|.|+.++      +++|++++.++
T Consensus       154 ~~~~~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~  190 (194)
T cd01891         154 QLDFPVLYASAKNGWASLNLEDPSEDLEPLFDTIIEH  190 (194)
T ss_pred             cCccCEEEeehhccccccccccchhhHHHHHHHHHhc
Confidence             1368999999999888544      44555555544

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.92  E-value=7e-24  Score=162.94  Aligned_cols=155  Identities=23%  Similarity=0.188  Sum_probs=111.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------ccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------FQSLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~   80 (210)
                      ...++|+++|.+|+|||||+|+|++........++.+.++....+.+.+. ..+.+|||+|..+         +.. ...
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~-tle  264 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRA-TLE  264 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHH-HHH
Confidence            45689999999999999999999987654444455556666666666432 4789999999721         211 122


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      .+.++|++++|+|++++.+.+.+..|...+.....    .+.|+++|+||+|+.+.  .     +..... . ...++++
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~----~~~piIlV~NK~Dl~~~--~-----~v~~~~-~-~~~~~i~  331 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAVEKVLEELGA----EDIPQLLVYNKIDLLDE--P-----RIERLE-E-GYPEAVF  331 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhcc----CCCCEEEEEEeecCCCh--H-----hHHHHH-h-CCCCEEE
Confidence            46789999999999999888777666555544322    26799999999998642  1     111111 1 2246899


Q ss_pred             ecCCCCCChHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +||++|.|+++++++|.+.
T Consensus       332 iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       332 VSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             EEccCCCCHHHHHHHHHhh
Confidence            9999999999999998764

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=2.7e-24  Score=154.56  Aligned_cols=156  Identities=17%  Similarity=0.109  Sum_probs=102.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC-----------cccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG-----------QERFQSLG   78 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~   78 (210)
                      ...++|+++|.+|+|||||+++|.+..+.....++.+...  ..+...    .+.+|||||           ++.+...+
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t~~~--~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRKP--NHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCceeeCc--eEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            4568999999999999999999998877655555554433  223322    489999999           34454444


Q ss_pred             cccc----cCCcEEEEEEECCChhhHH----------HHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchH
Q 028305           79 SAFY----RGADCCVLVYDVNVQKTFE----------SLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK  144 (210)
Q Consensus        79 ~~~~----~~~d~vi~v~d~~~~~s~~----------~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~  144 (210)
                      ..++    ..++++++|+|.+......          ........+..       .++|+++|+||+|+.+..     .+
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~p~iiv~NK~Dl~~~~-----~~  148 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE-------LGIPPIVAVNKMDKIKNR-----DE  148 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH-------cCCCeEEEEECccccCcH-----HH
Confidence            4444    3457888888876432110          00111122211       178999999999986531     23


Q ss_pred             HHHHHHHHcCC--------CcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          145 KALEWCAYRGN--------IPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       145 ~~~~~~~~~~~--------~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ...++.+..+.        .+++++||++| |+++++++|.+.+.+..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        149 VLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             HHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCcc
Confidence            34444444441        25899999999 99999999999875543

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.92  E-value=7.8e-25  Score=141.95  Aligned_cols=164  Identities=26%  Similarity=0.391  Sum_probs=128.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+.+.++|-.+||||||+|....+.+...-.|+.+...+    .+....+.+.+||.||+..++.+++.|.+.+++++|
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmr----k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY   94 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMR----KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVY   94 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeE----EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEE
Confidence            4678999999999999999999988888888888876554    344567899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |+|..+++.++....-+..+.   ......++|+++.+||.|+.++.......++.-...-..+.+.++.+|+++..|++
T Consensus        95 ~VDaad~~k~~~sr~EL~~LL---~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siScke~~Nid  171 (186)
T KOG0075|consen   95 VVDAADPDKLEASRSELHDLL---DKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCKEKVNID  171 (186)
T ss_pred             EeecCCcccchhhHHHHHHHh---cchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEcCCccHH
Confidence            999999988777655444443   33344489999999999998764322222222212222234779999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          171 EAFLCVAEIAL  181 (210)
Q Consensus       171 ~~~~~l~~~~~  181 (210)
                      -+.+||++..-
T Consensus       172 ~~~~Wli~hsk  182 (186)
T KOG0075|consen  172 ITLDWLIEHSK  182 (186)
T ss_pred             HHHHHHHHHhh
Confidence            99999988653

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.92  E-value=9.9e-24  Score=150.04  Aligned_cols=157  Identities=20%  Similarity=0.146  Sum_probs=112.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccc----------------eeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKA----------------TIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL   77 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   77 (210)
                      +|+|+|.+|+|||||+++|++.........                +.+...........  ...+.+|||||...+...
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~   78 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSSE   78 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHHH
Confidence            489999999999999999997766543211                12222222233333  467999999999888888


Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----  153 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----  153 (210)
                      +..+++.+|++++|+|.+++...... .++..+..       .+.|+++|+||+|+..........+......+..    
T Consensus        79 ~~~~~~~~d~~i~v~d~~~~~~~~~~-~~~~~~~~-------~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  150 (189)
T cd00881          79 VIRGLSVSDGAILVVDANEGVQPQTR-EHLRIARE-------GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFIS  150 (189)
T ss_pred             HHHHHHhcCEEEEEEECCCCCcHHHH-HHHHHHHH-------CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccc
Confidence            88888999999999999876544332 33333322       1679999999999976332333344444444432    


Q ss_pred             ---------CCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          154 ---------GNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       154 ---------~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                               ...+++++||++|.|+++++.++.+.+
T Consensus       151 ~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         151 TKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             hhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                     247899999999999999999999886

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=1e-23  Score=142.80  Aligned_cols=167  Identities=20%  Similarity=0.313  Sum_probs=128.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      -.....+|+++|-.++||||++++|..+..... .||.+.......+  .  ++.+.+||.+|+++++.++..|+++.++
T Consensus        13 ~~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~y--k--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~   87 (181)
T KOG0070|consen   13 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVETVEY--K--NISFTVWDVGGQEKLRPLWKHYFQNTQG   87 (181)
T ss_pred             cCcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeEEEE--c--ceEEEEEecCCCcccccchhhhccCCcE
Confidence            356789999999999999999999987776644 7777766554444  3  5889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc-cchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV-VPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      +|||+|.++++.+......+..+...   ....+.|+++++||.|+.++.... +.......-... ....+..++|.+|
T Consensus        88 lIfVvDS~Dr~Ri~eak~eL~~~l~~---~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~-~~w~iq~~~a~~G  163 (181)
T KOG0070|consen   88 LIFVVDSSDRERIEEAKEELHRMLAE---PELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRS-RNWHIQSTCAISG  163 (181)
T ss_pred             EEEEEeCCcHHHHHHHHHHHHHHHcC---cccCCceEEEEechhhccccCCHHHHHhHhhhhccCC-CCcEEeecccccc
Confidence            99999999998888766555555443   334588999999999998764311 111111111111 2356888999999


Q ss_pred             CChHHHHHHHHHHHHhc
Q 028305          167 CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~  183 (210)
                      +|+.+.++++.+.+.+.
T Consensus       164 ~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  164 EGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             ccHHHHHHHHHHHHhcc
Confidence            99999999999887653

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.91  E-value=4.9e-23  Score=162.53  Aligned_cols=154  Identities=20%  Similarity=0.233  Sum_probs=116.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------ccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~   80 (210)
                      ...++|+++|++|+|||||+|+|++.... ....++++.++....+.+++  ..+.+|||||..++...        ...
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~  278 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFK  278 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHH
Confidence            45689999999999999999999986532 33456667777777777776  55789999997654332        235


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++.+|++++|+|++++.+++..  |+..+..       .++|+++|+||+|+...        ....+.+..+ .++++
T Consensus       279 ~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~-------~~~piIlV~NK~Dl~~~--------~~~~~~~~~~-~~~~~  340 (442)
T TIGR00450       279 AIKQADLVIYVLDASQPLTKDDF--LIIDLNK-------SKKPFILVLNKIDLKIN--------SLEFFVSSKV-LNSSN  340 (442)
T ss_pred             HHhhCCEEEEEEECCCCCChhHH--HHHHHhh-------CCCCEEEEEECccCCCc--------chhhhhhhcC-CceEE
Confidence            67889999999999998877654  5554432       16799999999998642        1123344444 67899


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhcc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +|+++ .|++++|+.+.+.+.+..
T Consensus       341 vSak~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       341 LSAKQ-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             EEEec-CCHHHHHHHHHHHHHHHh
Confidence            99998 699999999999887653

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.91  E-value=3.9e-23  Score=164.44  Aligned_cols=165  Identities=21%  Similarity=0.195  Sum_probs=113.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc----------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG----------   78 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----------   78 (210)
                      ...++|+++|.+|+|||||+++|++.... ....++++.+.....+..++.  .+.+|||||..+.....          
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~  247 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLR  247 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHH
Confidence            45699999999999999999999976532 233445555555555555553  68899999975443221          


Q ss_pred             -cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-CCcccchHHHHHHHHHcCCC
Q 028305           79 -SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG-SSRVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        79 -~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-~~~~~~~~~~~~~~~~~~~~  156 (210)
                       ...++.+|++++|+|++++.+..... ++..+...       +.|+++|+||+|+... .........+.......+..
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~~-------~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  319 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDLR-IAGLILEA-------GKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFA  319 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHHc-------CCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCC
Confidence             23578899999999999876665542 33333221       6799999999999721 11111222222222223447


Q ss_pred             cEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +++++||++|.|++++|+++.+.+....
T Consensus       320 ~vi~~SA~~g~~v~~l~~~i~~~~~~~~  347 (429)
T TIGR03594       320 PIVFISALTGQGVDKLLDAIDEVYENAN  347 (429)
T ss_pred             ceEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            8999999999999999999998776543

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.91  E-value=8.6e-23  Score=140.90  Aligned_cols=146  Identities=23%  Similarity=0.270  Sum_probs=105.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------cccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSAFYR   83 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   83 (210)
                      ++|+++|++|+|||||++++.+.... ....++.+.+........++  ..+.+|||||..++...        ....+.
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            58999999999999999999977643 12234444445444555544  56899999997654322        224567


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|++++|+|++++.+......+..          ..+.|+++|+||+|+.+....         .. .....+++++||
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~----------~~~~~vi~v~nK~D~~~~~~~---------~~-~~~~~~~~~~Sa  139 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL----------PADKPIIVVLNKSDLLPDSEL---------LS-LLAGKPIIAISA  139 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh----------hcCCCEEEEEEchhcCCcccc---------cc-ccCCCceEEEEC
Confidence            8999999999998777666544332          116799999999999764211         22 223478999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~  180 (210)
                      +++.|+++++++|.+.+
T Consensus       140 ~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         140 KTGEGLDELKEALLELA  156 (157)
T ss_pred             CCCCCHHHHHHHHHHhh
Confidence            99999999999988753

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.91  E-value=1.6e-22  Score=157.86  Aligned_cols=164  Identities=21%  Similarity=0.178  Sum_probs=117.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----cccccccc---ccC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----FQSLGSAF---YRG   84 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~~~---~~~   84 (210)
                      ...|+|+|.||||||||+++|++........+.++..+....+.+++ ...+.+||+||..+    ...+...+   +..
T Consensus       158 ~adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier  236 (424)
T PRK12297        158 LADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIER  236 (424)
T ss_pred             cCcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhh
Confidence            34899999999999999999997664433334445555545454431 35699999999642    11222333   456


Q ss_pred             CcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           85 ADCCVLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        85 ~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ++++++|+|+++.   +.++....|...+..+...  ..++|+++|+||+|+...      .+....+.+..+ .+++++
T Consensus       237 ~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~--L~~kP~IVV~NK~DL~~~------~e~l~~l~~~l~-~~i~~i  307 (424)
T PRK12297        237 TRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPR--LLERPQIVVANKMDLPEA------EENLEEFKEKLG-PKVFPI  307 (424)
T ss_pred             CCEEEEEEeCCccccCChHHHHHHHHHHHhhhchh--ccCCcEEEEEeCCCCcCC------HHHHHHHHHHhC-CcEEEE
Confidence            8999999999865   5677777787777765321  126799999999998432      234455555555 789999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhccc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ||+++.|+++++++|.+.+.+...
T Consensus       308 SA~tgeGI~eL~~~L~~~l~~~~~  331 (424)
T PRK12297        308 SALTGQGLDELLYAVAELLEETPE  331 (424)
T ss_pred             eCCCCCCHHHHHHHHHHHHHhCcc
Confidence            999999999999999998876543

>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=2.6e-23  Score=137.14  Aligned_cols=114  Identities=36%  Similarity=0.563  Sum_probs=86.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC--CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS--QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      ||+|+|++|||||||+++|++..+.  ..+....+................+.+||++|++.+...+...+..+|++++|
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            7999999999999999999988876  12222233344444556666777799999999998888777779999999999


Q ss_pred             EECCChhhHHHHHHH---HHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           92 YDVNVQKTFESLQNW---REEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~---~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      ||++++.+++.+..+   +..+.....     ++|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~-----~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDK-----NIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSS-----CSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCC-----CCCEEEEEeccC
Confidence            999999999887554   555544322     689999999998

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.90  E-value=1.1e-22  Score=165.74  Aligned_cols=160  Identities=21%  Similarity=0.165  Sum_probs=120.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC---cCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN---KFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +.|+++|++++|||||+++|.+.   .+..+...+.+.+.....+...+  ..+.+||+||++.|.......+.++|+++
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            47999999999999999999963   34444556667777666666655  77999999999999888888899999999


Q ss_pred             EEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCCcccchHHHHHHHHHcC---CCcEEEec
Q 028305           90 LVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSSRVVPQKKALEWCAYRG---NIPYFETS  162 (210)
Q Consensus        90 ~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~S  162 (210)
                      +|+|+++.   .+.+.+.    .+. ..      ++| +++|+||+|+.+........+++..++...+   ..+++++|
T Consensus        79 LVVDa~~G~~~qT~ehl~----il~-~l------gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vS  147 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA----VLD-LL------GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTS  147 (581)
T ss_pred             EEEECCCCCcHHHHHHHH----HHH-Hc------CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEe
Confidence            99999983   3433321    121 11      667 9999999999764222234456666665543   47899999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |++|.|+++++..+.+.+.....
T Consensus       148 A~tG~GI~eL~~~L~~l~~~~~~  170 (581)
T TIGR00475       148 AKTGQGIGELKKELKNLLESLDI  170 (581)
T ss_pred             CCCCCCchhHHHHHHHHHHhCCC
Confidence            99999999999999887765543

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=1.4e-22  Score=157.39  Aligned_cols=167  Identities=17%  Similarity=0.047  Sum_probs=117.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-------ccccccccC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-------SLGSAFYRG   84 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~~~   84 (210)
                      ...|+|+|.||||||||+|+|++........+.++.......+...+ ...+.++||||..+-.       ......+..
T Consensus       159 iadValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~r  237 (390)
T PRK12298        159 LADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLER  237 (390)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHh
Confidence            34799999999999999999997765444445555555555555543 2458999999964311       112234678


Q ss_pred             CcEEEEEEECC---ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC-CcEEE
Q 028305           85 ADCCVLVYDVN---VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN-IPYFE  160 (210)
Q Consensus        85 ~d~vi~v~d~~---~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  160 (210)
                      +|++++|+|++   +.+.++....|...+..+....  .+.|+++|+||+|+.+.   ....+....+.+..+. ..+++
T Consensus       238 advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L--~~kP~IlVlNKiDl~~~---~el~~~l~~l~~~~~~~~~Vi~  312 (390)
T PRK12298        238 CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKL--AEKPRWLVFNKIDLLDE---EEAEERAKAIVEALGWEGPVYL  312 (390)
T ss_pred             CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhh--cCCCEEEEEeCCccCCh---HHHHHHHHHHHHHhCCCCCEEE
Confidence            99999999998   4556677777777776543211  15799999999998653   2223344444444332 37899


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhcc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +||+++.|++++++.|.+.+.+..
T Consensus       313 ISA~tg~GIdeLl~~I~~~L~~~~  336 (390)
T PRK12298        313 ISAASGLGVKELCWDLMTFIEENP  336 (390)
T ss_pred             EECCCCcCHHHHHHHHHHHhhhCc
Confidence            999999999999999999887653

>cd01895 EngA2 EngA2 subfamily

Probab=99.90  E-value=1.1e-22  Score=142.68  Aligned_cols=157  Identities=22%  Similarity=0.199  Sum_probs=103.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-----------ccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-----------LGS   79 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   79 (210)
                      +++|+++|++|+|||||+++|++.... ....++.+.......+..++  ..+.+|||||..+...           ...
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            679999999999999999999976533 12233333344344445555  3478999999654311           012


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---CCC
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---GNI  156 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---~~~  156 (210)
                      ..+..+|++++|+|.+++.+.... .+...+...       +.|+++++||+|+..... ....+....+.+..   ...
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~~-------~~~~iiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~  150 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDL-RIAGLILEE-------GKALVIVVNKWDLVEKDS-KTMKEFKKEIRRKLPFLDYA  150 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHhc-------CCCEEEEEeccccCCccH-HHHHHHHHHHHhhcccccCC
Confidence            345689999999999988765543 222222211       679999999999975420 11111112222222   247


Q ss_pred             cEEEecCCCCCChHHHHHHHHHH
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +++++||+++.|++++++++.+.
T Consensus       151 ~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         151 PIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             ceEEEeccCCCCHHHHHHHHHHh
Confidence            89999999999999999998764

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.90  E-value=3.7e-23  Score=145.50  Aligned_cols=159  Identities=22%  Similarity=0.198  Sum_probs=105.5

Q ss_pred             EEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc----ccc---ccccccCCcEEE
Q 028305           17 VLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF----QSL---GSAFYRGADCCV   89 (210)
Q Consensus        17 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~---~~~~~~~~d~vi   89 (210)
                      ++|++|||||||+++|.+........+.++.+.....+.+.+ ...+.+|||||..+.    ...   ....++.+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            589999999999999998764222223333444444444441 356899999996421    112   123467899999


Q ss_pred             EEEECCCh------hhHHHHHHHHHHHHHhcCC---CCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           90 LVYDVNVQ------KTFESLQNWREEFLKQADP---GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        90 ~v~d~~~~------~s~~~~~~~~~~l~~~~~~---~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +|+|.+++      .++.....|...+......   ....+.|+++|+||+|+...  ............. .....+++
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~--~~~~~~~~~~~~~-~~~~~~~~  156 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDA--EELEEELVRELAL-EEGAEVVP  156 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCch--hHHHHHHHHHHhc-CCCCCEEE
Confidence            99999988      4677777776666543210   00126799999999999754  2222211222333 23478999


Q ss_pred             ecCCCCCChHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +|++++.|++++++++.+.
T Consensus       157 ~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         157 ISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             EehhhhcCHHHHHHHHHhh
Confidence            9999999999999998764

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

>PRK11058 GTPase HflX; Provisional

Probab=99.90  E-value=1.3e-22  Score=159.31  Aligned_cols=161  Identities=19%  Similarity=0.123  Sum_probs=112.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc--cccc------ccccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF--QSLG------SAFYR   83 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--~~~~------~~~~~   83 (210)
                      ..+|+++|.+|+|||||+|+|.+........++.+.+.....+...+. ..+.+|||+|....  ...+      ...++
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            368999999999999999999987655444555566666656655442 25789999997431  1112      23367


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc-EEEec
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP-YFETS  162 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~S  162 (210)
                      .+|++++|+|++++.+++.+..|...+.....    .++|+++|+||+|+.+..  .   ....  ....+ .+ ++++|
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~----~~~pvIiV~NKiDL~~~~--~---~~~~--~~~~~-~~~~v~IS  343 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDA----HEIPTLLVMNKIDMLDDF--E---PRID--RDEEN-KPIRVWLS  343 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhcc----CCCCEEEEEEcccCCCch--h---HHHH--HHhcC-CCceEEEe
Confidence            89999999999999887776555444443322    267999999999986421  1   1111  11123 33 58899


Q ss_pred             CCCCCChHHHHHHHHHHHHhccc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |++|.|+++++++|.+.+.....
T Consensus       344 AktG~GIdeL~e~I~~~l~~~~~  366 (426)
T PRK11058        344 AQTGAGIPLLFQALTERLSGEVA  366 (426)
T ss_pred             CCCCCCHHHHHHHHHHHhhhccE
Confidence            99999999999999999865433

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.90  E-value=8.2e-23  Score=162.09  Aligned_cols=149  Identities=27%  Similarity=0.316  Sum_probs=112.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------cccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSAF   81 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   81 (210)
                      ..++|+++|.+|+|||||+|+|.+.... ....++++.++....+..++  ..+.+|||||..++...        ...+
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            4589999999999999999999987642 34456666777677777766  56899999997654332        2345


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ++.+|++++|+|.+++.+++....|..          ..+.|+++|+||+|+.+..  ...        . ....+++++
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~~~l~~----------~~~~piiiV~NK~DL~~~~--~~~--------~-~~~~~~i~i  350 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDDEILEE----------LKDKPVIVVLNKADLTGEI--DLE--------E-ENGKPVIRI  350 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHHHHHHh----------cCCCCcEEEEEhhhccccc--hhh--------h-ccCCceEEE
Confidence            788999999999999877765433322          1267999999999996531  111        1 223679999


Q ss_pred             cCCCCCChHHHHHHHHHHHHh
Q 028305          162 SAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ||++|.|+++++++|.+.+..
T Consensus       351 SAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        351 SAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             EeeCCCCHHHHHHHHHHHHhh
Confidence            999999999999999998865

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.90  E-value=4e-22  Score=161.81  Aligned_cols=156  Identities=21%  Similarity=0.212  Sum_probs=113.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .++.+|+++|++++|||||+++|.+..+.....++.+.+.....+..++. ..+.+|||||++.|..++...+..+|++|
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaI  163 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVV  163 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEE
Confidence            46789999999999999999999988877665556665555555555432 26899999999999998888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc--------CCCcEEEe
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR--------GNIPYFET  161 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~  161 (210)
                      +|+|+++...-.....+ .....       .++|+++++||+|+.+..     .+++...+...        +..+++++
T Consensus       164 LVVda~dgv~~qT~e~i-~~~~~-------~~vPiIVviNKiDl~~~~-----~e~v~~~L~~~g~~~~~~~~~~~~v~i  230 (587)
T TIGR00487       164 LVVAADDGVMPQTIEAI-SHAKA-------ANVPIIVAINKIDKPEAN-----PDRVKQELSEYGLVPEDWGGDTIFVPV  230 (587)
T ss_pred             EEEECCCCCCHhHHHHH-HHHHH-------cCCCEEEEEECcccccCC-----HHHHHHHHHHhhhhHHhcCCCceEEEE
Confidence            99999874322222221 11111       178999999999986432     12222222222        13579999


Q ss_pred             cCCCCCChHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~  179 (210)
                      ||++|.|++++++++...
T Consensus       231 SAktGeGI~eLl~~I~~~  248 (587)
T TIGR00487       231 SALTGDGIDELLDMILLQ  248 (587)
T ss_pred             ECCCCCChHHHHHhhhhh
Confidence            999999999999998753

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.90  E-value=1.4e-22  Score=162.33  Aligned_cols=155  Identities=21%  Similarity=0.236  Sum_probs=110.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--------cccccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSAF   81 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~   81 (210)
                      ...+|+|+|.+|+|||||+|+|++.... ....++++.+.........+  ..+.+|||||.+.        +......+
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~  114 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG--RRFTVVDTGGWEPDAKGLQASVAEQAEVA  114 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC--cEEEEEeCCCcCCcchhHHHHHHHHHHHH
Confidence            4578999999999999999999987643 34455666666666666655  4588999999652        22334556


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ++.+|++|+|+|+++..++.. ..+...+..       .++|+++|+||+|+....     .+ ...+. ..+...++++
T Consensus       115 ~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~-------~~~piilV~NK~Dl~~~~-----~~-~~~~~-~~g~~~~~~i  179 (472)
T PRK03003        115 MRTADAVLFVVDATVGATATD-EAVARVLRR-------SGKPVILAANKVDDERGE-----AD-AAALW-SLGLGEPHPV  179 (472)
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHH-------cCCCEEEEEECccCCccc-----hh-hHHHH-hcCCCCeEEE
Confidence            789999999999998765543 233333332       167999999999986421     11 12222 2333356899


Q ss_pred             cCCCCCChHHHHHHHHHHHHh
Q 028305          162 SAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ||++|.|++++|+++.+.+.+
T Consensus       180 SA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        180 SALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             EcCCCCCcHHHHHHHHhhccc
Confidence            999999999999999998865

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.90  E-value=7.5e-23  Score=144.35  Aligned_cols=154  Identities=19%  Similarity=0.179  Sum_probs=100.7

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc----------ccc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE----------RFQ   75 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~   75 (210)
                      ++++...++|+++|++|+|||||+++|++..+.....++.+.+.....+..++   .+.+|||||..          .+.
T Consensus        12 ~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~   88 (179)
T TIGR03598        12 QLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQ   88 (179)
T ss_pred             hCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHH
Confidence            34567889999999999999999999998754333223332222222222232   58999999943          223


Q ss_pred             cccccccc---CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           76 SLGSAFYR---GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        76 ~~~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      .....+++   .++++++|+|.+++.+.... .++..+..       .++|+++|+||+|+.+........++++..+..
T Consensus        89 ~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~-------~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~  160 (179)
T TIGR03598        89 KLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE-------RGIPVLIVLTKADKLKKSELNKQLKKIKKALKK  160 (179)
T ss_pred             HHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH-------cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhh
Confidence            33334444   35899999999876554443 22233322       167999999999997543334445566666655


Q ss_pred             cC-CCcEEEecCCCCCChH
Q 028305          153 RG-NIPYFETSAKEDCNID  170 (210)
Q Consensus       153 ~~-~~~~~~~Sa~~~~~v~  170 (210)
                      .+ ...++++||++|+|++
T Consensus       161 ~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       161 DADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             ccCCCceEEEECCCCCCCC
Confidence            43 3489999999999974

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.90  E-value=2.4e-22  Score=152.19  Aligned_cols=172  Identities=21%  Similarity=0.175  Sum_probs=112.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc--------cccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ--------SLGSAF   81 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~   81 (210)
                      +.-.|+|+|+||||||||+|+|++...... ..+.++..........+  ...+.+|||||.....        ......
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~--~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~   81 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTED--DAQIIFVDTPGIHKPKRALNRAMNKAAWSS   81 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcC--CceEEEEECCCCCCchhHHHHHHHHHHHHH
Confidence            456799999999999999999998776422 22222222222222222  2679999999964322        222345


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      +..+|++++|+|+++.... ........+..       .+.|+++|+||+|+...  ..........+.+..+...++++
T Consensus        82 ~~~~D~il~vvd~~~~~~~-~~~~i~~~l~~-------~~~pvilVlNKiDl~~~--~~~l~~~~~~l~~~~~~~~i~~i  151 (292)
T PRK00089         82 LKDVDLVLFVVDADEKIGP-GDEFILEKLKK-------VKTPVILVLNKIDLVKD--KEELLPLLEELSELMDFAEIVPI  151 (292)
T ss_pred             HhcCCEEEEEEeCCCCCCh-hHHHHHHHHhh-------cCCCEEEEEECCcCCCC--HHHHHHHHHHHHhhCCCCeEEEe
Confidence            6789999999999873221 11222222221       15799999999999742  23334445555555555789999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhcccccccCCCCCcce
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      ||+++.|++++++++.+.+.....   .++++..+.
T Consensus       152 SA~~~~gv~~L~~~L~~~l~~~~~---~y~~~~~td  184 (292)
T PRK00089        152 SALKGDNVDELLDVIAKYLPEGPP---YYPEDQITD  184 (292)
T ss_pred             cCCCCCCHHHHHHHHHHhCCCCCC---CCCCCCCCC
Confidence            999999999999999998865443   444444433

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.90  E-value=1.8e-22  Score=164.60  Aligned_cols=159  Identities=19%  Similarity=0.199  Sum_probs=114.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc-------CCCccc------ceeeeEEEEEE--EEe---CCeEEEEEEEeCCCcc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK-------FSQQYK------ATIGADFVTKE--LQM---DDKLVTLQIWDTAGQE   72 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~~~------~~~~~~~~~~~--~~~---~~~~~~~~i~D~~g~~   72 (210)
                      ...+|+++|+.++|||||+++|+...       +...+.      ...++++....  +.+   ++..+.+.+|||||+.
T Consensus         2 ~iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~   81 (595)
T TIGR01393         2 NIRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHV   81 (595)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcH
Confidence            35689999999999999999998642       111111      11122232222  222   4667899999999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      +|...+..+++.+|++|+|+|+++..+......|+..+.        .++|+++|+||+|+.+..    ..+...++.+.
T Consensus        82 dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~--------~~ipiIiViNKiDl~~~~----~~~~~~el~~~  149 (595)
T TIGR01393        82 DFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE--------NDLEIIPVINKIDLPSAD----PERVKKEIEEV  149 (595)
T ss_pred             HHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH--------cCCCEEEEEECcCCCccC----HHHHHHHHHHH
Confidence            999999999999999999999998777766666654432        167999999999986431    12222333343


Q ss_pred             cCC--CcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          153 RGN--IPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       153 ~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .+.  ..++++||++|.|++++|++|.+.+.
T Consensus       150 lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       150 IGLDASEAILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             hCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence            441  24899999999999999999998764

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=2.3e-22  Score=158.94  Aligned_cols=170  Identities=19%  Similarity=0.118  Sum_probs=117.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc----c---ccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF----Q---SLGSAFY   82 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~---~~~~~~~   82 (210)
                      .....|+|+|.||||||||+++|.+........+.++..+....+...+  ..+.+||+||..+-    .   ......+
T Consensus       157 k~~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhi  234 (500)
T PRK12296        157 KSVADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHI  234 (500)
T ss_pred             cccceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHH
Confidence            3457899999999999999999997655433345555666666666655  57999999995321    1   1123345


Q ss_pred             cCCcEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCC-------CCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH
Q 028305           83 RGADCCVLVYDVNVQ----KTFESLQNWREEFLKQADPG-------EHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA  151 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~-------~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~  151 (210)
                      ..+|++|+|+|+++.    +.+..+..+..++..+....       ...+.|+++|+||+|+.+.  .. ..+.......
T Consensus       235 eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da--~e-l~e~l~~~l~  311 (500)
T PRK12296        235 ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDA--RE-LAEFVRPELE  311 (500)
T ss_pred             HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhh--HH-HHHHHHHHHH
Confidence            779999999999753    34555555555665543210       1226799999999999643  11 2223333333


Q ss_pred             HcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          152 YRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       152 ~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ..+ .+++++||+++.|+++++.+|.+.+...+.
T Consensus       312 ~~g-~~Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        312 ARG-WPVFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             HcC-CeEEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            444 789999999999999999999999877654

>cd01894 EngA1 EngA1 subfamily

Probab=99.90  E-value=1.3e-22  Score=139.97  Aligned_cols=147  Identities=19%  Similarity=0.143  Sum_probs=100.3

Q ss_pred             EEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc--------cccccccCCc
Q 028305           16 IVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS--------LGSAFYRGAD   86 (210)
Q Consensus        16 ~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~~d   86 (210)
                      +++|.+|+|||||+++|.+.... ....+..+.+........++  ..+.+|||||+..+..        .....++.+|
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            48999999999999999976422 11223333334444444444  6799999999877543        3345678899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|+|..++.+.... .+...+...       +.|+++|+||+|+.+..  ..     .......+...++++|+++|
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~~-------~~piiiv~nK~D~~~~~--~~-----~~~~~~~~~~~~~~~Sa~~~  143 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRKS-------KKPVILVVNKVDNIKEE--DE-----AAEFYSLGFGEPIPISAEHG  143 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHhc-------CCCEEEEEECcccCChH--HH-----HHHHHhcCCCCeEEEecccC
Confidence            99999999876544332 122222221       57999999999997642  11     22233445347899999999


Q ss_pred             CChHHHHHHHHHH
Q 028305          167 CNIDEAFLCVAEI  179 (210)
Q Consensus       167 ~~v~~~~~~l~~~  179 (210)
                      .|++++++++.+.
T Consensus       144 ~gv~~l~~~l~~~  156 (157)
T cd01894         144 RGIGDLLDAILEL  156 (157)
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999999875

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.89  E-value=3.1e-22  Score=143.31  Aligned_cols=163  Identities=20%  Similarity=0.168  Sum_probs=105.5

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc----------ccc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE----------RFQ   75 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~   75 (210)
                      .+.....++|+++|.+|+|||||+++|++..+.....++.+.+........   ...+.+|||||..          .+.
T Consensus        18 ~~~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~   94 (196)
T PRK00454         18 QLPPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQ   94 (196)
T ss_pred             hCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHH
Confidence            344567799999999999999999999987644333333322222222222   2569999999942          233


Q ss_pred             ccccccccC---CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           76 SLGSAFYRG---ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        76 ~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      .....+++.   .+++++++|.+++...... .+...+..       .++|+++++||+|+.+....+...+++......
T Consensus        95 ~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~-------~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~  166 (196)
T PRK00454         95 KLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE-------YGIPVLIVLTKADKLKKGERKKQLKKVRKALKF  166 (196)
T ss_pred             HHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH-------cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHh
Confidence            333444443   4678888998775443321 11122211       167999999999997643233333445555544


Q ss_pred             cCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          153 RGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       153 ~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      . ...++++||+++.|++++++.|.+.+
T Consensus       167 ~-~~~~~~~Sa~~~~gi~~l~~~i~~~~  193 (196)
T PRK00454        167 G-DDEVILFSSLKKQGIDELRAAIAKWL  193 (196)
T ss_pred             c-CCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            4 37899999999999999999998765

>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=5.2e-23  Score=146.23  Aligned_cols=162  Identities=20%  Similarity=0.198  Sum_probs=110.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCC------------------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQ------------------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      ..++|+++|+.++|||||+.+|+......                  +.....+................+.++||||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            57899999999999999999998444211                  011122233333333312344679999999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH-HHHH
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL-EWCA  151 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~-~~~~  151 (210)
                      +|.......+..+|++|+|+|+.+....... ..+..+...       ++|+++|+||+|+.... .....+++. .+.+
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~~~-~~l~~~~~~-------~~p~ivvlNK~D~~~~~-~~~~~~~~~~~l~~  152 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQTE-EHLKILREL-------GIPIIVVLNKMDLIEKE-LEEIIEEIKEKLLK  152 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHHHH-HHHHHHHHT-------T-SEEEEEETCTSSHHH-HHHHHHHHHHHHHH
T ss_pred             ceeecccceecccccceeeeecccccccccc-ccccccccc-------ccceEEeeeeccchhhh-HHHHHHHHHHHhcc
Confidence            9988888889999999999999876443332 223333332       77999999999997321 112222222 4444


Q ss_pred             HcC-----CCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          152 YRG-----NIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       152 ~~~-----~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ..+     .++++++||.+|.|++++++.|.+.+.
T Consensus       153 ~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  153 EYGENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             HTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             ccccCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            443     357999999999999999999988754

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 ....

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.89  E-value=1.9e-22  Score=144.89  Aligned_cols=163  Identities=13%  Similarity=0.089  Sum_probs=102.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEEEEeC---------------------------C----
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKELQMD---------------------------D----   58 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~---------------------------~----   58 (210)
                      ++|+++|+.|+|||||+..+.+....   .......+...........                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            47999999999999999999754211   1111111111111111100                           0    


Q ss_pred             eEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC
Q 028305           59 KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS  138 (210)
Q Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~  138 (210)
                      ....+.+|||||++.+.......+..+|++++|+|++++.........+..+... .     ..|+++|+||+|+.+...
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~-~-----~~~iiivvNK~Dl~~~~~  154 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM-G-----LKHIIIVQNKIDLVKEEQ  154 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc-C-----CCcEEEEEEchhccCHHH
Confidence            1257899999999988888888888999999999998742111111122222211 1     247999999999975321


Q ss_pred             cccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .....+++..++...  ...+++++||++|.|++++++++.+.+.
T Consensus       155 ~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~  199 (203)
T cd01888         155 ALENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIP  199 (203)
T ss_pred             HHHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCC
Confidence            222234444444432  2367999999999999999999987553

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=7e-22  Score=157.47  Aligned_cols=165  Identities=21%  Similarity=0.184  Sum_probs=113.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc-----------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL-----------   77 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------   77 (210)
                      ...++|+++|.+|+|||||+++|++... .....++++.+.....+..++  ..+.+|||||.......           
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~lvDT~G~~~~~~~~~~~e~~~~~~  248 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG--QKYTLIDTAGIRRKGKVTEGVEKYSVIR  248 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC--eeEEEEECCCCCCCcchhhHHHHHHHHH
Confidence            4579999999999999999999997653 234445555555555555555  45789999996432211           


Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...+++.+|++|+|+|++++.+..... +...+...       +.|+++|+||+|+.+........+++.......+..+
T Consensus       249 ~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~~-------~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  320 (435)
T PRK00093        249 TLKAIERADVVLLVIDATEGITEQDLR-IAGLALEA-------GRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAP  320 (435)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHHc-------CCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCC
Confidence            123577899999999999876655432 22333221       6799999999999743212222233333333334578


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ++++||++|.|++++++.+.+.+....
T Consensus       321 i~~~SA~~~~gv~~l~~~i~~~~~~~~  347 (435)
T PRK00093        321 IVFISALTGQGVDKLLEAIDEAYENAN  347 (435)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHHc
Confidence            999999999999999999988765543

>cd04163 Era Era subfamily

Probab=99.89  E-value=8.1e-22  Score=137.23  Aligned_cols=156  Identities=20%  Similarity=0.128  Sum_probs=103.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCccc-ceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc--------cccccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYK-ATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS--------LGSAFY   82 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~   82 (210)
                      ..+|+++|++|+|||||+++|.+........ +..........  .......+.+|||||......        .....+
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   80 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGI--YTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSAL   80 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEE--EEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHH
Confidence            6789999999999999999999775432211 11111111111  222346789999999653322        223457


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ..+|++++|+|.+++.+.. ...+...+...       +.|+++|+||+|+...  .....+....+....+..+++++|
T Consensus        81 ~~~d~i~~v~d~~~~~~~~-~~~~~~~~~~~-------~~~~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~s  150 (168)
T cd04163          81 KDVDLVLFVVDASEPIGEG-DEFILELLKKS-------KTPVILVLNKIDLVKD--KEDLLPLLEKLKELGPFAEIFPIS  150 (168)
T ss_pred             HhCCEEEEEEECCCccCch-HHHHHHHHHHh-------CCCEEEEEEchhcccc--HHHHHHHHHHHHhccCCCceEEEE
Confidence            7899999999999872211 12223333322       5699999999999743  233344444555555457899999


Q ss_pred             CCCCCChHHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~  179 (210)
                      ++++.|++++++.|.+.
T Consensus       151 ~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         151 ALKGENVDELLEEIVKY  167 (168)
T ss_pred             eccCCChHHHHHHHHhh
Confidence            99999999999999875

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.

>COG1159 Era GTPase [General function prediction only]

Probab=99.89  E-value=5.5e-22  Score=144.46  Aligned_cols=173  Identities=21%  Similarity=0.187  Sum_probs=119.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------cc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GS   79 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~   79 (210)
                      ..+.--|+++|.||+|||||+|++++...+-. +.+.++.......+..+  ..++.++||||..+....        ..
T Consensus         3 ~~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~--~~QiIfvDTPGih~pk~~l~~~m~~~a~   80 (298)
T COG1159           3 KFKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTD--NAQIIFVDTPGIHKPKHALGELMNKAAR   80 (298)
T ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcC--CceEEEEeCCCCCCcchHHHHHHHHHHH
Confidence            44567899999999999999999999887633 33333344434444433  477999999994432222        23


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHH-HHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNW-REEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~-~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      ..+..+|++++|+|.+.+..-  ...+ +..+.. .      +.|+++++||+|.....  ..................+
T Consensus        81 ~sl~dvDlilfvvd~~~~~~~--~d~~il~~lk~-~------~~pvil~iNKID~~~~~--~~l~~~~~~~~~~~~f~~i  149 (298)
T COG1159          81 SALKDVDLILFVVDADEGWGP--GDEFILEQLKK-T------KTPVILVVNKIDKVKPK--TVLLKLIAFLKKLLPFKEI  149 (298)
T ss_pred             HHhccCcEEEEEEeccccCCc--cHHHHHHHHhh-c------CCCeEEEEEccccCCcH--HHHHHHHHHHHhhCCcceE
Confidence            446789999999999874322  2222 233322 1      66999999999987642  2123444444555556789


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhcccccccCCCCCcce
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      +++||++|.|++.+.+.+...+.+..+   .|+++.++.
T Consensus       150 vpiSA~~g~n~~~L~~~i~~~Lpeg~~---~yp~d~itD  185 (298)
T COG1159         150 VPISALKGDNVDTLLEIIKEYLPEGPW---YYPEDQITD  185 (298)
T ss_pred             EEeeccccCCHHHHHHHHHHhCCCCCC---cCChhhccC
Confidence            999999999999999999998887766   555555544

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=1.6e-22  Score=136.77  Aligned_cols=167  Identities=26%  Similarity=0.578  Sum_probs=144.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++++++|+.|.||||++.+...+.|...+.++++.....-.+..+...+++..|||.|++.+..+...++-++.+.
T Consensus         7 ~~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcA   86 (216)
T KOG0096|consen    7 QGLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCA   86 (216)
T ss_pred             ccceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEeccee
Confidence            35699999999999999999999999999999999999988877777666679999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |++||+...-++.++.+|...+.+.+.     ++|+++++||.|..+..    ...+...+.+... +.++++|++.+-|
T Consensus        87 iimFdVtsr~t~~n~~rwhrd~~rv~~-----NiPiv~cGNKvDi~~r~----~k~k~v~~~rkkn-l~y~~iSaksn~N  156 (216)
T KOG0096|consen   87 IIMFDVTSRFTYKNVPRWHRDLVRVRE-----NIPIVLCGNKVDIKARK----VKAKPVSFHRKKN-LQYYEISAKSNYN  156 (216)
T ss_pred             EEEeeeeehhhhhcchHHHHHHHHHhc-----CCCeeeeccceeccccc----cccccceeeeccc-ceeEEeecccccc
Confidence            999999999999999999999998876     89999999999987532    1222233334444 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      .+.-|-|+++++.-...
T Consensus       157 fekPFl~LarKl~G~p~  173 (216)
T KOG0096|consen  157 FERPFLWLARKLTGDPS  173 (216)
T ss_pred             cccchHHHhhhhcCCCC
Confidence            99999999999865544

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.89  E-value=2.7e-22  Score=138.43  Aligned_cols=143  Identities=18%  Similarity=0.177  Sum_probs=98.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc----cccccccccccCCcEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE----RFQSLGSAFYRGADCCV   89 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~~~d~vi   89 (210)
                      +|+++|.+|+|||||+++|.+....  ...+.+.       .+...    .+|||||..    ++.......+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~--~~~~~~v-------~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTL--ARKTQAV-------EFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcc--CccceEE-------EECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            7999999999999999998754311  1111111       22221    269999962    22222233468899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC-CcEEEecCCCCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN-IPYFETSAKEDCN  168 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  168 (210)
                      +|+|.++..++..  .|+..+    .    .+.|+++++||+|+.+.     ..+....++...+. .+++++||++|.|
T Consensus        70 ~v~d~~~~~s~~~--~~~~~~----~----~~~~ii~v~nK~Dl~~~-----~~~~~~~~~~~~~~~~p~~~~Sa~~g~g  134 (158)
T PRK15467         70 YVHGANDPESRLP--AGLLDI----G----VSKRQIAVISKTDMPDA-----DVAATRKLLLETGFEEPIFELNSHDPQS  134 (158)
T ss_pred             EEEeCCCcccccC--HHHHhc----c----CCCCeEEEEEccccCcc-----cHHHHHHHHHHcCCCCCEEEEECCCccC
Confidence            9999998876532  333332    1    15699999999998542     23455666666663 4899999999999


Q ss_pred             hHHHHHHHHHHHHhcc
Q 028305          169 IDEAFLCVAEIALKNE  184 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~  184 (210)
                      ++++|+.+.+.+.+..
T Consensus       135 i~~l~~~l~~~~~~~~  150 (158)
T PRK15467        135 VQQLVDYLASLTKQEE  150 (158)
T ss_pred             HHHHHHHHHHhchhhh
Confidence            9999999988875543

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.89  E-value=6.6e-22  Score=165.19  Aligned_cols=165  Identities=21%  Similarity=0.173  Sum_probs=114.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----------cccc-c
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----------FQSL-G   78 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~-~   78 (210)
                      ..++|+++|.+|+|||||+|+|++.... ....++++.+.....+.+++.  .+.+|||||..+          +... .
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHH
Confidence            4689999999999999999999987642 234455556666666667664  467999999532          1111 1


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      ...++.+|++++|+|+++..+..... ++..+...       ++|+++|+||+|+.+.....................++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~-i~~~~~~~-------~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~i  598 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLK-VMSMAVDA-------GRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARR  598 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHHc-------CCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCE
Confidence            23467899999999999887776654 33333221       67999999999997532112222222222122234678


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++||++|.|++++++.+.+.+.+...
T Consensus       599 i~iSAktg~gv~~L~~~i~~~~~~~~~  625 (712)
T PRK09518        599 VNLSAKTGWHTNRLAPAMQEALESWDQ  625 (712)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            999999999999999999998876543

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.88  E-value=1.8e-21  Score=161.67  Aligned_cols=161  Identities=20%  Similarity=0.210  Sum_probs=113.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ..++..|+|+|+.++|||||+++|....+......+.+.+.....+..++  ..+.||||||+..|..++...+..+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            45788999999999999999999998777655545555555444455554  5689999999999999998889999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH---HHHHHc-CCCcEEEecCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL---EWCAYR-GNIPYFETSAK  164 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~Sa~  164 (210)
                      |+|+|+++...-.....| .....       .++|+|+++||+|+.+.....+ ..++.   .+...+ +.++++++||+
T Consensus       365 ILVVdAddGv~~qT~e~i-~~a~~-------~~vPiIVviNKiDl~~a~~e~V-~~eL~~~~~~~e~~g~~vp~vpvSAk  435 (787)
T PRK05306        365 VLVVAADDGVMPQTIEAI-NHAKA-------AGVPIIVAINKIDKPGANPDRV-KQELSEYGLVPEEWGGDTIFVPVSAK  435 (787)
T ss_pred             EEEEECCCCCCHhHHHHH-HHHHh-------cCCcEEEEEECccccccCHHHH-HHHHHHhcccHHHhCCCceEEEEeCC
Confidence            999999874222222222 11111       1789999999999965321111 11111   112222 24789999999


Q ss_pred             CCCChHHHHHHHHHHH
Q 028305          165 EDCNIDEAFLCVAEIA  180 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~  180 (210)
                      +|.|++++|++|....
T Consensus       436 tG~GI~eLle~I~~~~  451 (787)
T PRK05306        436 TGEGIDELLEAILLQA  451 (787)
T ss_pred             CCCCchHHHHhhhhhh
Confidence            9999999999998643

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.88  E-value=1.2e-21  Score=161.32  Aligned_cols=162  Identities=20%  Similarity=0.254  Sum_probs=112.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeE--EEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGAD--FVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .+..+|+|+|++++|||||+++|....+......+.+.+  .+...+..++....+.+|||||+..|..++..++..+|+
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDi  321 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDI  321 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCE
Confidence            467899999999999999999999877765444444332  222233334445789999999999999999889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHH---HHHHc-CCCcEEEecC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALE---WCAYR-GNIPYFETSA  163 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~Sa  163 (210)
                      +|+|+|+++.........+ ..+..       .++|+|+++||+|+.+... ....+++..   +.... +..+++++||
T Consensus       322 aILVVDA~dGv~~QT~E~I-~~~k~-------~~iPiIVViNKiDl~~~~~-e~v~~eL~~~~ll~e~~g~~vpvv~VSA  392 (742)
T CHL00189        322 AILIIAADDGVKPQTIEAI-NYIQA-------ANVPIIVAINKIDKANANT-ERIKQQLAKYNLIPEKWGGDTPMIPISA  392 (742)
T ss_pred             EEEEEECcCCCChhhHHHH-HHHHh-------cCceEEEEEECCCccccCH-HHHHHHHHHhccchHhhCCCceEEEEEC
Confidence            9999999874332222222 12211       1789999999999975321 111111111   11122 2468999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~  180 (210)
                      ++|.|+++++++|...+
T Consensus       393 ktG~GIdeLle~I~~l~  409 (742)
T CHL00189        393 SQGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCCCHHHHHHhhhhhh
Confidence            99999999999998765

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=3.7e-21  Score=153.33  Aligned_cols=148  Identities=20%  Similarity=0.202  Sum_probs=105.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--------cccccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSAFYR   83 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~~   83 (210)
                      ++|+++|.+|+|||||+++|.+.... ....++.+.+........++  ..+.+|||||...        +......++.
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            58999999999999999999977642 23345555566666666666  6799999999876        2223345678


Q ss_pred             CCcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           84 GADCCVLVYDVNVQKTFES--LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      .+|++++|+|.+++.+...  +..|+...          +.|+++|+||+|+.+.      .+....+ ...+...++++
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~~~----------~~piilv~NK~D~~~~------~~~~~~~-~~lg~~~~~~i  142 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILRKS----------NKPVILVVNKVDGPDE------EADAYEF-YSLGLGEPYPI  142 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHHc----------CCcEEEEEECccCccc------hhhHHHH-HhcCCCCCEEE
Confidence            8999999999987544322  22333221          6799999999996531      1222233 23453458999


Q ss_pred             cCCCCCChHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~  179 (210)
                      ||++|.|+.++++.+.+.
T Consensus       143 Sa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        143 SAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             EeeCCCCHHHHHHHHHhh
Confidence            999999999999999883

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.87  E-value=4.9e-21  Score=125.56  Aligned_cols=174  Identities=24%  Similarity=0.420  Sum_probs=147.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .++.-.+||.++|++..|||||+-++.++.+...+..+.+..+..+.+.+.+..+.+.+||.+|++++..+.+.....+-
T Consensus        15 ~~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsv   94 (205)
T KOG1673|consen   15 VSNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSV   94 (205)
T ss_pred             cccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcE
Confidence            45667899999999999999999999999998888889999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC---cccchHHHHHHHHHcCCCcEEEecC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS---RVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      +++++||++.+.++..+..|+.+.......    .+| |+|++|.|+.-..+   ........+..++-.+ .+.+++|+
T Consensus        95 aIlFmFDLt~r~TLnSi~~WY~QAr~~Nkt----AiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mn-AsL~F~St  168 (205)
T KOG1673|consen   95 AILFMFDLTRRSTLNSIKEWYRQARGLNKT----AIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMN-ASLFFCST  168 (205)
T ss_pred             EEEEEEecCchHHHHHHHHHHHHHhccCCc----cce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhC-CcEEEeec
Confidence            999999999999999999999988765433    455 57899999743221   1223344566666666 78999999


Q ss_pred             CCCCChHHHHHHHHHHHHhcccc
Q 028305          164 KEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      ..+.|+..+|.-+.-++......
T Consensus       169 s~sINv~KIFK~vlAklFnL~~t  191 (205)
T KOG1673|consen  169 SHSINVQKIFKIVLAKLFNLPWT  191 (205)
T ss_pred             cccccHHHHHHHHHHHHhCCcee
Confidence            99999999999999998877653

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=3e-21  Score=124.40  Aligned_cols=159  Identities=18%  Similarity=0.301  Sum_probs=121.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.++|+.+|-.++||||++.+|..+... ...|+++...  ..+.+  .++.+.+||.+|++..+.+|..|+....++|
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvGFnv--etVty--kN~kfNvwdvGGqd~iRplWrhYy~gtqglI   89 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNV--ETVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   89 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCCc-ccccccceeE--EEEEe--eeeEEeeeeccCchhhhHHHHhhccCCceEE
Confidence            35789999999999999999999976654 5566666544  34444  4588999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~  165 (210)
                      +|+|..+.+..+...   .++.+......-...|+++.+||-|+..+.    ..+++..+.+-.    ....+.++|+.+
T Consensus        90 FV~Dsa~~dr~eeAr---~ELh~ii~~~em~~~~~LvlANkQDlp~A~----~pqei~d~leLe~~r~~~W~vqp~~a~~  162 (180)
T KOG0071|consen   90 FVVDSADRDRIEEAR---NELHRIINDREMRDAIILILANKQDLPDAM----KPQEIQDKLELERIRDRNWYVQPSCALS  162 (180)
T ss_pred             EEEeccchhhHHHHH---HHHHHHhCCHhhhcceEEEEecCccccccc----CHHHHHHHhccccccCCccEeecccccc
Confidence            999998876555544   344444444444478999999999998653    344444443222    235688999999


Q ss_pred             CCChHHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEIA  180 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~  180 (210)
                      |.|+.|-|.|+...+
T Consensus       163 gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  163 GDGLKEGLSWLSNNL  177 (180)
T ss_pred             chhHHHHHHHHHhhc
Confidence            999999999998764

>cd00880 Era_like Era (E

Probab=99.87  E-value=4.2e-21  Score=132.56  Aligned_cols=154  Identities=21%  Similarity=0.192  Sum_probs=103.1

Q ss_pred             EEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc-------ccccccCCcEE
Q 028305           17 VLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL-------GSAFYRGADCC   88 (210)
Q Consensus        17 v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~~~~~~d~v   88 (210)
                      ++|++|+|||||++++.+.... .....+.+............ ...+.+||+||.......       ...+++.+|++
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            5899999999999999976544 22333333333333333321 357999999997655433       33467889999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|+|.+++....... +.......       +.|+++|+||+|+..........+............+++++|++++.|
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~~-------~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  151 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRER-------GKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEG  151 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHhc-------CCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCC
Confidence            9999999987666554 22332221       779999999999976421111111012222333458899999999999


Q ss_pred             hHHHHHHHHHH
Q 028305          169 IDEAFLCVAEI  179 (210)
Q Consensus       169 v~~~~~~l~~~  179 (210)
                      +.++++++.+.
T Consensus       152 v~~l~~~l~~~  162 (163)
T cd00880         152 IDELREALIEA  162 (163)
T ss_pred             HHHHHHHHHhh
Confidence            99999999875

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

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.87  E-value=5.9e-21  Score=154.82  Aligned_cols=161  Identities=26%  Similarity=0.278  Sum_probs=105.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC----------------CeEEEEEEEeCCCcccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------------DKLVTLQIWDTAGQERF   74 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~g~~~~   74 (210)
                      ++.-|+++|++++|||||+++|.+..+......+.+.+.....+..+                .....+.+|||||++.|
T Consensus         3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f   82 (590)
T TIGR00491         3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAF   82 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhH
Confidence            34569999999999999999999877654332222221111111110                01123889999999999


Q ss_pred             cccccccccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----------c
Q 028305           75 QSLGSAFYRGADCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----------V  141 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----------~  141 (210)
                      ..++..+++.+|++++|+|+++   +.+++.+.    .+..       .++|+++++||+|+.+.-...          .
T Consensus        83 ~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~-------~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak  151 (590)
T TIGR00491        83 TNLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM-------YKTPFVVAANKIDRIPGWRSHEGRPFMESFSK  151 (590)
T ss_pred             HHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH-------cCCCEEEEEECCCccchhhhccCchHHHHHHh
Confidence            9988889999999999999987   44444332    1111       167999999999996421000          0


Q ss_pred             chH------------HHHHHH-------------HHcCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          142 PQK------------KALEWC-------------AYRGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       142 ~~~------------~~~~~~-------------~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ..+            ...++.             ...+..+++++||++|+|+++++.++...+.+
T Consensus       152 ~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~  217 (590)
T TIGR00491       152 QEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQ  217 (590)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHH
Confidence            000            001111             11234789999999999999999998766544

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.87  E-value=8.2e-21  Score=136.22  Aligned_cols=121  Identities=19%  Similarity=0.275  Sum_probs=88.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC-cEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA-DCCVLVY   92 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~-d~vi~v~   92 (210)
                      +|+++|++|||||||+++|..+.+.....++ ............+....+.+||+||+.++......+++.+ +++|+|+
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            6899999999999999999988776544332 2222221222123456799999999999988888889998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           93 DVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        93 d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      |..+. .++.....|+..+...... ...++|+++++||+|+...
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~-~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEK-VKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhh-ccCCCCEEEEecchhhccc
Confidence            99987 6676666665555432211 1137899999999998654

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.87  E-value=4.4e-21  Score=152.10  Aligned_cols=161  Identities=18%  Similarity=0.193  Sum_probs=107.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEE
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQ   55 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~   55 (210)
                      +.+++.++|+++|++++|||||+++|+...-.                               .+...+++++.....+.
T Consensus         1 ~~~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~   80 (425)
T PRK12317          1 AKEKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFE   80 (425)
T ss_pred             CCCCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEe
Confidence            35678899999999999999999999833211                               11234555555554444


Q ss_pred             eCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           56 MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        56 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .  ..+.+.+|||||++++.......+..+|++++|+|++++........+...+.....     ..|+++++||+|+.+
T Consensus        81 ~--~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~-----~~~iivviNK~Dl~~  153 (425)
T PRK12317         81 T--DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG-----INQLIVAINKMDAVN  153 (425)
T ss_pred             c--CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC-----CCeEEEEEEcccccc
Confidence            4  447899999999988877666667889999999999873122111111112222211     236999999999975


Q ss_pred             CCC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHHHHH
Q 028305          136 GSS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       136 ~~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ...  .....+++..++...+    ..+++++||++|.|+++...
T Consensus       154 ~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        154 YDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             ccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            211  1233455666665555    25799999999999997543

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.87  E-value=2.2e-20  Score=122.24  Aligned_cols=169  Identities=26%  Similarity=0.393  Sum_probs=135.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC--CcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccc-cccccccccCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS--QQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERF-QSLGSAFYRGA   85 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~-~~~~~~~~~~~   85 (210)
                      .+..||+|+|..++|||+++..|..+...  ....++.+ +.+...+.. ++..-.+.++||.|-... ..+-..|+.-+
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~a   85 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFA   85 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccC
Confidence            45679999999999999999998854432  34455553 454555544 455567999999996655 66667888889


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++||+..+++||+.+....+.+.+..   +...+|+++++||+|+.+.  +.+..+....+++... +..+++++.+
T Consensus        86 DafVLVYs~~d~eSf~rv~llKk~Idk~K---dKKEvpiVVLaN~rdr~~p--~~vd~d~A~~Wa~rEk-vkl~eVta~d  159 (198)
T KOG3883|consen   86 DAFVLVYSPMDPESFQRVELLKKEIDKHK---DKKEVPIVVLANKRDRAEP--REVDMDVAQIWAKREK-VKLWEVTAMD  159 (198)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHhhcc---ccccccEEEEechhhcccc--hhcCHHHHHHHHhhhh-eeEEEEEecc
Confidence            99999999999999999887777776633   3347899999999999865  8888899999999888 9999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ...+-+.|..+..++..-..
T Consensus       160 R~sL~epf~~l~~rl~~pqs  179 (198)
T KOG3883|consen  160 RPSLYEPFTYLASRLHQPQS  179 (198)
T ss_pred             chhhhhHHHHHHHhccCCcc
Confidence            99999999999888755433

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.87  E-value=5.7e-21  Score=155.94  Aligned_cols=161  Identities=20%  Similarity=0.202  Sum_probs=112.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCc--CCC-------------cccceeeeEEEEEEEEe---CCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNK--FSQ-------------QYKATIGADFVTKELQM---DDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~   71 (210)
                      +...+++++|+.++|||||+.+|+...  ...             +...+.++......+.+   ++..+.+.+|||||+
T Consensus         5 ~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          5 KNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            456799999999999999999998532  110             00111222111111211   556789999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~  151 (210)
                      .++...+..+++.+|++|+|+|+++.........|.....        .++|+++|+||+|+.+..    ..+...++..
T Consensus        85 ~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~--------~~lpiIvViNKiDl~~a~----~~~v~~ei~~  152 (600)
T PRK05433         85 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE--------NDLEIIPVLNKIDLPAAD----PERVKQEIED  152 (600)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH--------CCCCEEEEEECCCCCccc----HHHHHHHHHH
Confidence            9999889999999999999999998765555555543321        167999999999986432    1112223333


Q ss_pred             HcCC--CcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          152 YRGN--IPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       152 ~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ..+.  ..++++||++|.|+.+++++|.+.+..
T Consensus       153 ~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        153 VIGIDASDAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             HhCCCcceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence            3331  248999999999999999999988754

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.87  E-value=7.5e-21  Score=155.16  Aligned_cols=146  Identities=18%  Similarity=0.199  Sum_probs=108.0

Q ss_pred             cCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc------ccccc--cCCcEEEE
Q 028305           19 GDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL------GSAFY--RGADCCVL   90 (210)
Q Consensus        19 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--~~~d~vi~   90 (210)
                      |++|+|||||+|+|.+......+.++.+.+.....+..++  ..+.+|||||+.++...      ...++  +.+|++++
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            8999999999999998877656677777777766777666  45899999998776543      22222  36899999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |+|.++.+..   ..+..++.+       .++|+++|+||+|+.+..  .. ..+.+.+.+..+ .+++++||++|.|++
T Consensus        79 VvDat~ler~---l~l~~ql~~-------~~~PiIIVlNK~Dl~~~~--~i-~~d~~~L~~~lg-~pvv~tSA~tg~Gi~  144 (591)
T TIGR00437        79 VVDASNLERN---LYLTLQLLE-------LGIPMILALNLVDEAEKK--GI-RIDEEKLEERLG-VPVVPTSATEGRGIE  144 (591)
T ss_pred             EecCCcchhh---HHHHHHHHh-------cCCCEEEEEehhHHHHhC--CC-hhhHHHHHHHcC-CCEEEEECCCCCCHH
Confidence            9999875332   222233322       168999999999986431  12 234566667677 899999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          171 EAFLCVAEIA  180 (210)
Q Consensus       171 ~~~~~l~~~~  180 (210)
                      ++++++.+.+
T Consensus       145 eL~~~i~~~~  154 (591)
T TIGR00437       145 RLKDAIRKAI  154 (591)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.87  E-value=2.1e-20  Score=155.98  Aligned_cols=153  Identities=16%  Similarity=0.151  Sum_probs=111.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc----------ccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG----------SAF   81 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----------~~~   81 (210)
                      .++|+++|+||+|||||+|+|.+........++++.+.....+..  ....+.+|||||..++....          ..+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~--~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFST--TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEc--CceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            578999999999999999999987665555566666554444443  44679999999987654321          112


Q ss_pred             --ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           82 --YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        82 --~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                        ...+|++++|+|.++.+...   .+..++.+.       ++|+++|+||+|+.+.  +. ...+.+.+.+..+ .+++
T Consensus        81 l~~~~aD~vI~VvDat~ler~l---~l~~ql~e~-------giPvIvVlNK~Dl~~~--~~-i~id~~~L~~~LG-~pVv  146 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERNL---YLTLQLLEL-------GIPCIVALNMLDIAEK--QN-IRIDIDALSARLG-CPVI  146 (772)
T ss_pred             HhccCCCEEEEEecCCcchhhH---HHHHHHHHc-------CCCEEEEEEchhhhhc--cC-cHHHHHHHHHHhC-CCEE
Confidence              24789999999998864422   233444332       7899999999998643  22 2344566667777 8999


Q ss_pred             EecCCCCCChHHHHHHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ++|+.+|.|++++++.+.+..
T Consensus       147 piSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        147 PLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             EEEeecCCCHHHHHHHHHHhh
Confidence            999999999999999998765

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.86  E-value=1.8e-23  Score=140.97  Aligned_cols=180  Identities=39%  Similarity=0.603  Sum_probs=152.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ....++++|+|.-|+|||+++.+++...++..+..+++.++.-+...-+ ...+++++||..|++++..+..-+++.+++
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            3568999999999999999999999999988888888877765555443 345789999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      ..+|||+++..+|+....|...+...........+|+++.+||||..... ..........+.+.++....+++|++.+.
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a-~~~~~~~~d~f~kengf~gwtets~Kenk  180 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSA-KNEATRQFDNFKKENGFEGWTETSAKENK  180 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHh-hhhhHHHHHHHHhccCccceeeecccccc
Confidence            99999999999999999999999877665566678999999999986531 22234677888888888889999999999


Q ss_pred             ChHHHHHHHHHHHHhccccccc
Q 028305          168 NIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      |+.|+-..+++.++.+..+...
T Consensus       181 ni~Ea~r~lVe~~lvnd~q~~~  202 (229)
T KOG4423|consen  181 NIPEAQRELVEKILVNDEQPIK  202 (229)
T ss_pred             ChhHHHHHHHHHHHhhccCCcc
Confidence            9999999999999888754433

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.86  E-value=9.8e-21  Score=150.76  Aligned_cols=152  Identities=20%  Similarity=0.192  Sum_probs=108.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc--------ccccccccccccC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ--------ERFQSLGSAFYRG   84 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~--------~~~~~~~~~~~~~   84 (210)
                      +|+++|.+|+|||||+|+|++.... ....++.+.+........++  ..+.+|||||.        ..+......+++.
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            5899999999999999999977643 23345555566556666655  45999999995        3334445667889


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++++|+|..++.+.... .+...+.+.       +.|+++|+||+|+.+...      ...+ ....+..+++++||.
T Consensus        79 ad~vl~vvD~~~~~~~~d~-~i~~~l~~~-------~~piilVvNK~D~~~~~~------~~~~-~~~lg~~~~~~vSa~  143 (429)
T TIGR03594        79 ADVILFVVDGREGLTPEDE-EIAKWLRKS-------GKPVILVANKIDGKKEDA------VAAE-FYSLGFGEPIPISAE  143 (429)
T ss_pred             CCEEEEEEeCCCCCCHHHH-HHHHHHHHh-------CCCEEEEEECccCCcccc------cHHH-HHhcCCCCeEEEeCC
Confidence            9999999999875443321 222223221       679999999999875321      1122 234564589999999


Q ss_pred             CCCChHHHHHHHHHHHHh
Q 028305          165 EDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~  182 (210)
                      +|.|+.++++.+.+.+..
T Consensus       144 ~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       144 HGRGIGDLLDAILELLPE  161 (429)
T ss_pred             cCCChHHHHHHHHHhcCc
Confidence            999999999999988754

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.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.86  E-value=1.1e-20  Score=149.77  Aligned_cols=158  Identities=16%  Similarity=0.169  Sum_probs=108.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC--cCC-----------------------------CcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN--KFS-----------------------------QQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~   57 (210)
                      ....++|+++|+.++|||||+++|+..  ...                             .+...+.+.+.....+.. 
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~-   82 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET-   82 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc-
Confidence            567899999999999999999999852  111                             112234445554444444 


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                       ....+.+|||||+++|.......+..+|++++|+|+++.+++.... .+...+.....     ..|+++|+||+|+.+.
T Consensus        83 -~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~-----~~~iIVviNK~Dl~~~  156 (426)
T TIGR00483        83 -DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLG-----INQLIVAINKMDSVNY  156 (426)
T ss_pred             -CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcC-----CCeEEEEEEChhccCc
Confidence             4478999999999988777777788999999999999875331111 11112222221     3479999999999642


Q ss_pred             CC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHHHH
Q 028305          137 SS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus       137 ~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ..  .....+++..+++..+    ..+++++||++|.|+.+++
T Consensus       157 ~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       157 DEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence            21  2233556666776655    3679999999999998744

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.86  E-value=1.9e-20  Score=130.64  Aligned_cols=153  Identities=22%  Similarity=0.250  Sum_probs=99.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----------cccccccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----------FQSLGSAFYR   83 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~~~~~~   83 (210)
                      .|+++|++|+|||||++.+.+..+.....++.+.+.....+..++   .+.+|||||...          +......++.
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            489999999999999999996555444444443333333333333   799999999433          2233333333


Q ss_pred             ---CCcEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH-HcCCCc
Q 028305           84 ---GADCCVLVYDVNVQKTF--ESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA-YRGNIP  157 (210)
Q Consensus        84 ---~~d~vi~v~d~~~~~s~--~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~-~~~~~~  157 (210)
                         ..+++++++|..+..+.  ..+..|+...          +.|+++|+||+|+.+...............+ .....+
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~----------~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~  147 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL----------GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPP  147 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc----------CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCc
Confidence               45788999998865322  2223333322          5699999999999654323333333333333 244478


Q ss_pred             EEEecCCCCCChHHHHHHHHHH
Q 028305          158 YFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ++++|++++.|+.+++++|.+.
T Consensus       148 ~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         148 IILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             eEEEecCCCCCHHHHHHHHHHh
Confidence            9999999999999999999875

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.86  E-value=4.1e-20  Score=141.86  Aligned_cols=165  Identities=22%  Similarity=0.189  Sum_probs=123.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc-----------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG-----------   78 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------   78 (210)
                      .+++|+++|.||+|||||+|+|++..-. ....++++.+.....+..+++  ++.++||+|..+-....           
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~--~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGR--KYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCe--EEEEEECCCCCcccccccceEEEeehhh
Confidence            5799999999999999999999977643 566778888888888888785  47788999944322222           


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC--CCcccchHHHHHHHHHcCCC
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG--SSRVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~--~~~~~~~~~~~~~~~~~~~~  156 (210)
                      ...+..+|++++|+|.+.+-+-... .....+...       +.++++|+||+|+.+.  .......++++......+..
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~-~ia~~i~~~-------g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a  326 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDL-RIAGLIEEA-------GRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFA  326 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHH-HHHHHHHHc-------CCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCC
Confidence            2335679999999999987554432 222222222       6799999999999765  23445555666666666778


Q ss_pred             cEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++++||++|.++.++|+.+.+.......
T Consensus       327 ~i~~iSA~~~~~i~~l~~~i~~~~~~~~~  355 (444)
T COG1160         327 PIVFISALTGQGLDKLFEAIKEIYECATR  355 (444)
T ss_pred             eEEEEEecCCCChHHHHHHHHHHHHHhcc
Confidence            89999999999999999999887765544

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.85  E-value=1.9e-21  Score=129.87  Aligned_cols=167  Identities=22%  Similarity=0.320  Sum_probs=123.9

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhC---cCC----CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYN---KFS----QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG   78 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~---~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   78 (210)
                      .+..+..+.|+++|..++|||||+.++...   .+.    ..-.++.+..  ...+.+.  +..+.+||.+|++..++++
T Consensus        11 ~~~~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLn--ig~i~v~--~~~l~fwdlgGQe~lrSlw   86 (197)
T KOG0076|consen   11 YMFKKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLN--IGTIEVC--NAPLSFWDLGGQESLRSLW   86 (197)
T ss_pred             HHhhhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeeccccee--ecceeec--cceeEEEEcCChHHHHHHH
Confidence            455677899999999999999999876421   111    1223333333  3344444  3679999999999999999


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH---Hc--
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA---YR--  153 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~---~~--  153 (210)
                      ..|+..+|++|+++|.++++.++.....+..+...   ...+++|+++.+||.|+.+..    ...+++....   ..  
T Consensus        87 ~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~---E~leg~p~L~lankqd~q~~~----~~~El~~~~~~~e~~~~  159 (197)
T KOG0076|consen   87 KKYYWLAHGIIYVIDATDRERFEESKTAFEKVVEN---EKLEGAPVLVLANKQDLQNAM----EAAELDGVFGLAELIPR  159 (197)
T ss_pred             HHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHH---HHhcCCchhhhcchhhhhhhh----hHHHHHHHhhhhhhcCC
Confidence            99999999999999999999888776544444322   223489999999999998653    2233332222   22  


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +...+.++||.+|+||++...|+...+.++
T Consensus       160 rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  160 RDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             ccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            246799999999999999999999999888

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.85  E-value=7.6e-20  Score=152.92  Aligned_cols=156  Identities=21%  Similarity=0.205  Sum_probs=108.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--------ccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~   80 (210)
                      ....+|+++|.+|+|||||+|+|++.... ....++++.+........++  ..+.+|||||.+.        +......
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~  350 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG--TDFKLVDTGGWEADVEGIDSAIASQAQI  350 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC--EEEEEEeCCCcCCCCccHHHHHHHHHHH
Confidence            44578999999999999999999976542 23345666665555555555  4688999999653        2233345


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++.+|++++|+|.++...... ..|...+..       .++|+++|+||+|+...      ......+. ..+....++
T Consensus       351 ~~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~-------~~~pvIlV~NK~D~~~~------~~~~~~~~-~lg~~~~~~  415 (712)
T PRK09518        351 AVSLADAVVFVVDGQVGLTSTD-ERIVRMLRR-------AGKPVVLAVNKIDDQAS------EYDAAEFW-KLGLGEPYP  415 (712)
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHh-------cCCCEEEEEECcccccc------hhhHHHHH-HcCCCCeEE
Confidence            6788999999999986422111 233344432       17799999999998542      11222222 233345789


Q ss_pred             ecCCCCCChHHHHHHHHHHHHh
Q 028305          161 TSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +||++|.|+.++++++++.+..
T Consensus       416 iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        416 ISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             EECCCCCCchHHHHHHHHhccc
Confidence            9999999999999999998865

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.85  E-value=4.6e-20  Score=141.98  Aligned_cols=155  Identities=21%  Similarity=0.241  Sum_probs=118.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccc--------c
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGS--------A   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~--------~   80 (210)
                      ..-++++++|.||+|||||+|.|.+.... ....++++.|.....+.++|  +.+.+.||+|..+.....+        .
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G--~pv~l~DTAGiRet~d~VE~iGIeRs~~  292 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG--IPVRLVDTAGIRETDDVVERIGIERAKK  292 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC--EEEEEEecCCcccCccHHHHHHHHHHHH
Confidence            35789999999999999999999977654 67789999999999999988  6788889999665554443        3


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      .+..||.+++|+|.+.+.+-.....+.     ...    .+.|+++|.||.|+.+...    ....    +.....+++.
T Consensus       293 ~i~~ADlvL~v~D~~~~~~~~d~~~~~-----~~~----~~~~~i~v~NK~DL~~~~~----~~~~----~~~~~~~~i~  355 (454)
T COG0486         293 AIEEADLVLFVLDASQPLDKEDLALIE-----LLP----KKKPIIVVLNKADLVSKIE----LESE----KLANGDAIIS  355 (454)
T ss_pred             HHHhCCEEEEEEeCCCCCchhhHHHHH-----hcc----cCCCEEEEEechhcccccc----cchh----hccCCCceEE
Confidence            367899999999999863322222111     111    2679999999999986421    1111    2222357999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +|+++|.|++.+.+.|.+.+...
T Consensus       356 iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         356 ISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             EEecCccCHHHHHHHHHHHHhhc
Confidence            99999999999999999988777

>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=1.1e-19  Score=132.79  Aligned_cols=155  Identities=21%  Similarity=0.133  Sum_probs=102.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-------ccccccccCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-------SLGSAFYRGAD   86 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~~~~d   86 (210)
                      +|+++|++|+|||||+++|.+........+..+.+.....+.+++  ..+++||+||..+..       ......++++|
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            789999999999999999997654333333444445455555555  578999999964322       12345678999


Q ss_pred             EEEEEEECCChhh-HHHHHHHHHH-----------------------------------------HHHhcC---------
Q 028305           87 CCVLVYDVNVQKT-FESLQNWREE-----------------------------------------FLKQAD---------  115 (210)
Q Consensus        87 ~vi~v~d~~~~~s-~~~~~~~~~~-----------------------------------------l~~~~~---------  115 (210)
                      ++++|+|++++.. ...+...+..                                         +..+.-         
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            9999999987642 2222222110                                         000000         


Q ss_pred             -----------CCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          116 -----------PGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       116 -----------~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                                 ......+|+++|+||+|+.+.       ++...++.   ...++++||++|.|++++|+.+.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~~-------~~~~~~~~---~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDLISI-------EELDLLAR---QPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccCCCH-------HHHHHHhc---CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                       011224699999999998642       33334433   24689999999999999999998765

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.84  E-value=2.7e-20  Score=142.85  Aligned_cols=150  Identities=20%  Similarity=0.189  Sum_probs=112.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc---------ccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ---------SLGSAFY   82 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~   82 (210)
                      ..|+++|.||+|||||.|||++...+ ....|+++.|..+......+..  +.++||+|.+.-.         ......+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~--f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--FILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCce--EEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            67999999999999999999988765 4566788888888888887754  8889999955322         2234557


Q ss_pred             cCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           83 RGADCCVLVYDVNVQKTFE--SLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~--~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ..||++|||+|....-+-.  .+..++.   +.       ++|+++|+||+|....      .+...++ ...|...+++
T Consensus        82 ~eADvilfvVD~~~Git~~D~~ia~~Lr---~~-------~kpviLvvNK~D~~~~------e~~~~ef-yslG~g~~~~  144 (444)
T COG1160          82 EEADVILFVVDGREGITPADEEIAKILR---RS-------KKPVILVVNKIDNLKA------EELAYEF-YSLGFGEPVP  144 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHHHHHHHHHH---hc-------CCCEEEEEEcccCchh------hhhHHHH-HhcCCCCceE
Confidence            8899999999998743322  2223322   11       6799999999997522      2333333 4466688999


Q ss_pred             ecCCCCCChHHHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      +||..|.|+.++++.+++.+.
T Consensus       145 ISA~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         145 ISAEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             eehhhccCHHHHHHHHHhhcC
Confidence            999999999999999999984

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.84  E-value=1.2e-19  Score=129.05  Aligned_cols=149  Identities=16%  Similarity=0.090  Sum_probs=99.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      .++|+++|+.++|||||+++|+....                ..+...+.+.+..  ...+......+.++||||+.++.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~~~i~~iDtPG~~~~~   79 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTA--HVEYETANRHYAHVDCPGHADYI   79 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEee--eeEecCCCeEEEEEECcCHHHHH
Confidence            58999999999999999999985310                0111223333333  33333445678999999999888


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHHHHHHc
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALEWCAYR  153 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~~~~~~  153 (210)
                      ......+..+|++++|+|......-.. ...+..+...       ++| +|+++||+|+..... .....+++..++...
T Consensus        80 ~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~-------~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~  151 (195)
T cd01884          80 KNMITGAAQMDGAILVVSATDGPMPQT-REHLLLARQV-------GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKY  151 (195)
T ss_pred             HHHHHHhhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHh
Confidence            777888889999999999986432221 2223333322       556 789999999864221 122344566666655


Q ss_pred             C----CCcEEEecCCCCCChH
Q 028305          154 G----NIPYFETSAKEDCNID  170 (210)
Q Consensus       154 ~----~~~~~~~Sa~~~~~v~  170 (210)
                      +    .++++++||.+|.|+.
T Consensus       152 g~~~~~v~iipiSa~~g~n~~  172 (195)
T cd01884         152 GFDGDNTPIVRGSALKALEGD  172 (195)
T ss_pred             cccccCCeEEEeeCccccCCC
Confidence            4    3789999999999863

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.84  E-value=1.2e-19  Score=148.40  Aligned_cols=160  Identities=18%  Similarity=0.143  Sum_probs=109.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC---cCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN---KFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      -|+++|+.++|||||+++|.+.   .+..+...+.+++.....+...+ ...+.+|||||+++|.......+..+|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            5899999999999999999853   23334444555555444443322 2458999999999998777778889999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCCcccchHHHHHHHHHcC--CCcEEEecCCCCC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSSRVVPQKKALEWCAYRG--NIPYFETSAKEDC  167 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~  167 (210)
                      |+|+++...-... ..+..+ ...      ++| +++|+||+|+.+........+++..++...+  ..+++++||++|.
T Consensus        81 VVda~eg~~~qT~-ehl~il-~~l------gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~  152 (614)
T PRK10512         81 VVACDDGVMAQTR-EHLAIL-QLT------GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGR  152 (614)
T ss_pred             EEECCCCCcHHHH-HHHHHH-HHc------CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCC
Confidence            9999873221111 111222 211      445 5799999999753222333455555555443  3689999999999


Q ss_pred             ChHHHHHHHHHHHHh
Q 028305          168 NIDEAFLCVAEIALK  182 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~  182 (210)
                      |++++++.|.+....
T Consensus       153 gI~~L~~~L~~~~~~  167 (614)
T PRK10512        153 GIDALREHLLQLPER  167 (614)
T ss_pred             CCHHHHHHHHHhhcc
Confidence            999999999876543

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.84  E-value=2.9e-20  Score=146.25  Aligned_cols=167  Identities=17%  Similarity=0.138  Sum_probs=107.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEE--------------EEe----CC------eEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKE--------------LQM----DD------KLV   61 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~--------------~~~----~~------~~~   61 (210)
                      +++.++|+++|++++|||||+++|.+....   .+...+.+.......              +..    ++      ...
T Consensus         1 ~~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (406)
T TIGR03680         1 RQPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLR   80 (406)
T ss_pred             CCceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCcccccccccccccccccccccc
Confidence            357899999999999999999999753221   111111111111100              001    11      135


Q ss_pred             EEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCccc
Q 028305           62 TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVV  141 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~  141 (210)
                      .+.+|||||+++|...+...+..+|++++|+|++++.........+..+. ...     ..|+++|+||+|+.+......
T Consensus        81 ~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~-~~g-----i~~iIVvvNK~Dl~~~~~~~~  154 (406)
T TIGR03680        81 RVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALE-IIG-----IKNIVIVQNKIDLVSKEKALE  154 (406)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHH-HcC-----CCeEEEEEEccccCCHHHHHH
Confidence            79999999999998888888888999999999996431111122222222 111     236999999999975422222


Q ss_pred             chHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          142 PQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       142 ~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ..+++..+....  ...+++++||++|.|+++++++|...+.
T Consensus       155 ~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       155 NYEEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            234444444432  1368999999999999999999988654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK10218 GTP-binding protein; Provisional

Probab=99.84  E-value=1.4e-19  Score=147.31  Aligned_cols=162  Identities=15%  Similarity=0.192  Sum_probs=112.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh--CcCCCcc------------cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY--NKFSQQY------------KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS   76 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   76 (210)
                      ...+|+++|+.++|||||+++|+.  +.+....            ....++++......+.....++.+|||||+.+|..
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            467999999999999999999996  3332211            12334444444455555568899999999999999


Q ss_pred             cccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---
Q 028305           77 LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---  153 (210)
Q Consensus        77 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---  153 (210)
                      .+..+++.+|++|+|+|+.+...... ..++..+...       ++|.++++||+|+....... ..+++..+....   
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~~-------gip~IVviNKiD~~~a~~~~-vl~ei~~l~~~l~~~  154 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFAY-------GLKPIVVINKVDRPGARPDW-VVDQVFDLFVNLDAT  154 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHHc-------CCCEEEEEECcCCCCCchhH-HHHHHHHHHhccCcc
Confidence            99999999999999999987533322 2223333221       77999999999987543222 223333333221   


Q ss_pred             ---CCCcEEEecCCCCC----------ChHHHHHHHHHHHH
Q 028305          154 ---GNIPYFETSAKEDC----------NIDEAFLCVAEIAL  181 (210)
Q Consensus       154 ---~~~~~~~~Sa~~~~----------~v~~~~~~l~~~~~  181 (210)
                         ..++++++||.+|.          |+..+++.+++.+.
T Consensus       155 ~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        155 DEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             ccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence               23679999999998          57778877776664

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.84  E-value=5.7e-20  Score=132.49  Aligned_cols=150  Identities=19%  Similarity=0.178  Sum_probs=96.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCC-------------------------------cccceeeeEEEEEEEEeCCeEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQ-------------------------------QYKATIGADFVTKELQMDDKLVT   62 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~   62 (210)
                      +|+++|++|+|||||+++|+...-.-                               +...+.+.+.....+...+  ..
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            58999999999999999997432110                               0113334444444444433  56


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC--cc
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS--RV  140 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~--~~  140 (210)
                      +.+|||||+.++.......++.+|++++|+|.+++..-.. ......+. ...     ..++|+|+||+|+.+...  ..
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~-~~~-----~~~iIvviNK~D~~~~~~~~~~  151 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILS-LLG-----IRHVVVAVNKMDLVDYSEEVFE  151 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHH-HcC-----CCcEEEEEEchhcccCCHHHHH
Confidence            8899999998876666677889999999999987532221 11122221 111     235888999999865321  11


Q ss_pred             cchHHHHHHHHHcC--CCcEEEecCCCCCChHHH
Q 028305          141 VPQKKALEWCAYRG--NIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       141 ~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~  172 (210)
                      ....++..++...+  ..+++++||++|.|+.+.
T Consensus       152 ~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         152 EIVADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            22345555555555  245999999999999854

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.84  E-value=6.1e-20  Score=144.38  Aligned_cols=168  Identities=18%  Similarity=0.126  Sum_probs=107.7

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEEEEe------------------C------Ce
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKELQM------------------D------DK   59 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~------------------~------~~   59 (210)
                      .++++.++|+++|+.++|||||+.+|.+.-..   .+...+.+.+........                  +      +.
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETEL   83 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccc
Confidence            45678899999999999999999999643111   111222222221111000                  0      01


Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS  138 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~  138 (210)
                      ...+.+|||||+.++..........+|++++|+|++++. ....... +..+... .     ..|+++|+||+|+.+...
T Consensus        84 ~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~-l~~l~~~-~-----i~~iiVVlNK~Dl~~~~~  156 (411)
T PRK04000         84 LRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEH-LMALDII-G-----IKNIVIVQNKIDLVSKER  156 (411)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHH-HHHHHHc-C-----CCcEEEEEEeeccccchh
Confidence            257899999999988776666677789999999999643 1222111 1222211 1     236899999999976422


Q ss_pred             cccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .....+++..++...  ...+++++||++|.|++++++.|.+.+.
T Consensus       157 ~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        157 ALENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             HHHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence            222234445554432  2378999999999999999999988764

>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=7.3e-20  Score=121.32  Aligned_cols=136  Identities=24%  Similarity=0.321  Sum_probs=99.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----cccccccccccccCCcEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----QERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----~~~~~~~~~~~~~~~d~vi   89 (210)
                      ||+++|+.|||||||+++|.+...  .+..+..+.+.            =.++||||    ...+.........++|.++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999997654  23333322221            12479999    3334444455567899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      ++.|.+++.+.-. ..+...+          +.|+|=|+||+|+..   .....+..+++++..|.-.+|++|+.+|+|+
T Consensus        69 ll~dat~~~~~~p-P~fa~~f----------~~pvIGVITK~Dl~~---~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi  134 (143)
T PF10662_consen   69 LLQDATEPRSVFP-PGFASMF----------NKPVIGVITKIDLPS---DDANIERAKKWLKNAGVKEIFEVSAVTGEGI  134 (143)
T ss_pred             EEecCCCCCccCC-chhhccc----------CCCEEEEEECccCcc---chhhHHHHHHHHHHcCCCCeEEEECCCCcCH
Confidence            9999998643221 1222222          669999999999984   2345677788888889888999999999999


Q ss_pred             HHHHHHHH
Q 028305          170 DEAFLCVA  177 (210)
Q Consensus       170 ~~~~~~l~  177 (210)
                      +++.++|.
T Consensus       135 ~eL~~~L~  142 (143)
T PF10662_consen  135 EELKDYLE  142 (143)
T ss_pred             HHHHHHHh
Confidence            99999874

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.83  E-value=2.4e-19  Score=145.99  Aligned_cols=161  Identities=24%  Similarity=0.289  Sum_probs=103.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEE--EEEEEe----CCeE-----E-----EEEEEeCCCccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFV--TKELQM----DDKL-----V-----TLQIWDTAGQER   73 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~----~~~~-----~-----~~~i~D~~g~~~   73 (210)
                      .++..|+++|++++|||||+++|.+.........+.+.+..  ......    .+..     .     .+.+|||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            45567999999999999999999866544332222211111  111100    0111     1     268999999999


Q ss_pred             ccccccccccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc-----------
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR-----------  139 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~-----------  139 (210)
                      |..++...++.+|++++|+|+++   +.+++.+..    +..       .++|+++++||+|+...-..           
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~-------~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~  152 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR-------RKTPFVVAANKIDRIPGWKSTEDAPFLESIE  152 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH-------cCCCEEEEEECcCCchhhhhhcCchHHHHHh
Confidence            99888888889999999999987   455544422    111       17899999999998521000           


Q ss_pred             ---c----cchH---HHHHHHHH--------------cCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          140 ---V----VPQK---KALEWCAY--------------RGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       140 ---~----~~~~---~~~~~~~~--------------~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                         .    ...+   ++......              .+.++++++||.+|.|+++++..+...+.
T Consensus       153 ~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~~  218 (586)
T PRK04004        153 KQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLAQ  218 (586)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHHH
Confidence               0    0000   01111111              13477999999999999999998876543

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.83  E-value=2e-19  Score=130.98  Aligned_cols=171  Identities=20%  Similarity=0.162  Sum_probs=111.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc------------cc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER------------FQ   75 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~------------~~   75 (210)
                      ...+..+|+|+|.||+|||||.|.+++...........++....-.+... ...++.|+||||-..            +.
T Consensus        68 e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts-~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   68 EAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITS-GETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEec-CceEEEEecCCcccccchhhhHHHHHHhh
Confidence            35689999999999999999999999988775544444333332223222 347899999999221            11


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-----------cccc--
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-----------RVVP--  142 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-----------~~~~--  142 (210)
                      +.....+..||++++++|++++..... ...+..+..+.      ++|-++|.||.|......           .+..  
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys------~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~  219 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS------KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKL  219 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh------cCCceeeccchhcchhhhHHhhhHHhccccccchh
Confidence            122344677999999999997433222 22334444433      779999999999743210           1111  


Q ss_pred             hHHH-HHHHHHc------------CCCcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          143 QKKA-LEWCAYR------------GNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       143 ~~~~-~~~~~~~------------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      ..+. ..|....            ..-.+|.+||++|+|++++-++|...+....++
T Consensus       220 kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW~  276 (379)
T KOG1423|consen  220 KLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPWK  276 (379)
T ss_pred             hhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCCC
Confidence            1111 1111111            012389999999999999999999998887773

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.83  E-value=1.1e-19  Score=148.15  Aligned_cols=161  Identities=16%  Similarity=0.174  Sum_probs=110.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC--cCCCcc------------cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN--KFSQQY------------KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG   78 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~--~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   78 (210)
                      .+|+++|+.++|||||+.+|+..  .+....            ....++++......+.....++.+|||||+.+|....
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev   81 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEV   81 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHH
Confidence            48999999999999999999853  222110            1111223333333333345789999999999999889


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-----
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-----  153 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-----  153 (210)
                      ..+++.+|++++|+|+.+.. ......|+..+...       ++|+++|+||+|+.+... ....+++..+....     
T Consensus        82 ~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~~-------~ip~IVviNKiD~~~a~~-~~v~~ei~~l~~~~g~~~e  152 (594)
T TIGR01394        82 ERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALEL-------GLKPIVVINKIDRPSARP-DEVVDEVFDLFAELGADDE  152 (594)
T ss_pred             HHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHC-------CCCEEEEEECCCCCCcCH-HHHHHHHHHHHHhhccccc
Confidence            99999999999999998642 23334455554432       779999999999865421 12233444443221     


Q ss_pred             -CCCcEEEecCCCCC----------ChHHHHHHHHHHHHh
Q 028305          154 -GNIPYFETSAKEDC----------NIDEAFLCVAEIALK  182 (210)
Q Consensus       154 -~~~~~~~~Sa~~~~----------~v~~~~~~l~~~~~~  182 (210)
                       ..++++++||++|.          |+..+|+.+++.+..
T Consensus       153 ~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~  192 (594)
T TIGR01394       153 QLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPA  192 (594)
T ss_pred             cccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCC
Confidence             13679999999995          799999888887653

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.83  E-value=2.4e-19  Score=131.23  Aligned_cols=114  Identities=18%  Similarity=0.199  Sum_probs=79.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC--------------Ccc--cceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS--------------QQY--KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL   77 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~--------------~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   77 (210)
                      +|+++|+.|+|||||+++|+...-.              +..  ....+.........+.....++.+|||||+.++...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            5899999999999999999853211              000  001111222222333334478999999999999888


Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      ...+++.+|++++|+|..+.... ....++..+...       ++|+++++||+|+..
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~-------~~P~iivvNK~D~~~  130 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL-------NIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc-------CCCEEEEEECccccC
Confidence            88899999999999999876443 233444444332       679999999999875

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.82  E-value=8.9e-20  Score=132.48  Aligned_cols=148  Identities=16%  Similarity=0.163  Sum_probs=95.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEEeCCeEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQMDDKLVT   62 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~   62 (210)
                      +|+++|++++|||||+.+|+...-.                               .+...+++.+.....+...  ...
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~--~~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETE--KYR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeC--CeE
Confidence            5899999999999999998632110                               1112233334444444443  467


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCChh-------hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-------TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-------s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      +.+|||||+.++.......++.+|++++|+|++++.       ...... .+.... ...     ..|+++|+||+|+..
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~-~~~~~~-~~~-----~~~iiivvNK~Dl~~  151 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTRE-HALLAR-TLG-----VKQLIVAVNKMDDVT  151 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHH-HHHHHH-HcC-----CCeEEEEEEcccccc
Confidence            999999999888777777788899999999998742       111111 122221 111     358999999999974


Q ss_pred             CC----CcccchHHHHHHHHHcC----CCcEEEecCCCCCChH
Q 028305          136 GS----SRVVPQKKALEWCAYRG----NIPYFETSAKEDCNID  170 (210)
Q Consensus       136 ~~----~~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~  170 (210)
                      ..    ......+++..+....+    ..+++++||++|.|++
T Consensus       152 ~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         152 VNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             ccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            21    11222334444444443    2679999999999987

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.82  E-value=1.8e-18  Score=117.24  Aligned_cols=160  Identities=22%  Similarity=0.291  Sum_probs=119.1

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCC--------Ccc----cceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS--------QQY----KATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~--------~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ...+....||+|.|+.++||||+++++......        ...    ..++..++...  .+++ ...+.+++||||++
T Consensus         4 ~~~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~--~~~~-~~~v~LfgtPGq~R   80 (187)
T COG2229           4 AANKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSI--ELDE-DTGVHLFGTPGQER   80 (187)
T ss_pred             ccccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccce--EEcC-cceEEEecCCCcHH
Confidence            455678899999999999999999999866531        111    12333344333  2322 24588999999999


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR  153 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~  153 (210)
                      |.-++..+.+.+.++|+++|.+.+..+ .....+..+... .     .+|+++++||.|+.+.    .+.+.+++.....
T Consensus        81 F~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~-~-----~ip~vVa~NK~DL~~a----~ppe~i~e~l~~~  149 (187)
T COG2229          81 FKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSR-N-----PIPVVVAINKQDLFDA----LPPEKIREALKLE  149 (187)
T ss_pred             HHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhc-c-----CCCEEEEeeccccCCC----CCHHHHHHHHHhc
Confidence            999999999999999999999998887 223333333222 1     2899999999999864    4556666666555


Q ss_pred             -CCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          154 -GNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       154 -~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                       -..+++++++.++++..+.++.+...
T Consensus       150 ~~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         150 LLSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             cCCCceeeeecccchhHHHHHHHHHhh
Confidence             24899999999999999999988876

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.82  E-value=1e-18  Score=120.94  Aligned_cols=164  Identities=21%  Similarity=0.203  Sum_probs=114.0

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----------ccccc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----------QERFQ   75 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~   75 (210)
                      +.+.+....|+++|..|+|||||||+|++..-......+.|.+.....+.+++.   +.++|.||          .+.+.
T Consensus        18 ~~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~   94 (200)
T COG0218          18 QYPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWK   94 (200)
T ss_pred             hCCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHH
Confidence            344567789999999999999999999986643344445555555666666664   77889999          44555


Q ss_pred             ccccccccC---CcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH
Q 028305           76 SLGSAFYRG---ADCCVLVYDVNVQKTFES--LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus        76 ~~~~~~~~~---~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      .....|++.   -.++++++|+..+..-..  +..|+...          ++|+++|+||+|.............+....
T Consensus        95 ~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~~----------~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l  164 (200)
T COG0218          95 KLIEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLEL----------GIPVIVVLTKADKLKKSERNKQLNKVAEEL  164 (200)
T ss_pred             HHHHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHHc----------CCCeEEEEEccccCChhHHHHHHHHHHHHh
Confidence            666666643   468999999988654322  22333333          889999999999876433333334444333


Q ss_pred             HHcCCCc--EEEecCCCCCChHHHHHHHHHHHHh
Q 028305          151 AYRGNIP--YFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       151 ~~~~~~~--~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      .......  ++..|+..+.|++++...|.+.+..
T Consensus       165 ~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         165 KKPPPDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             cCCCCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence            3333233  8889999999999999999887654

>PRK12735 elongation factor Tu; Reviewed

Probab=99.82  E-value=6.6e-19  Score=138.20  Aligned_cols=166  Identities=14%  Similarity=0.075  Sum_probs=108.9

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhhC-------cC---------CCcccceeeeEEEEEEEEeCCeEEEEEEEeC
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYN-------KF---------SQQYKATIGADFVTKELQMDDKLVTLQIWDT   68 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~-------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   68 (210)
                      .-.+..+.++|+++|++++|||||+++|++.       .+         ..+...+.+.+...  ..+......+.++||
T Consensus         5 ~~~~~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~--~~~~~~~~~i~~iDt   82 (396)
T PRK12735          5 KFERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSH--VEYETANRHYAHVDC   82 (396)
T ss_pred             hcCCCCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEee--eEEcCCCcEEEEEEC
Confidence            3445678999999999999999999999852       10         01123334444433  333334457899999


Q ss_pred             CCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEE-EEEecCCCCCCCC-cccchHHH
Q 028305           69 AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV-LLGNKIDTDGGSS-RVVPQKKA  146 (210)
Q Consensus        69 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~i-lv~~K~D~~~~~~-~~~~~~~~  146 (210)
                      ||+.+|.......+..+|++++|+|+........ ...+..+...       ++|.+ +++||+|+.+... .+...+++
T Consensus        83 PGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt-~e~l~~~~~~-------gi~~iivvvNK~Dl~~~~~~~~~~~~ei  154 (396)
T PRK12735         83 PGHADYVKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQV-------GVPYIVVFLNKCDMVDDEELLELVEMEV  154 (396)
T ss_pred             CCHHHHHHHHHhhhccCCEEEEEEECCCCCchhH-HHHHHHHHHc-------CCCeEEEEEEecCCcchHHHHHHHHHHH
Confidence            9999887777777889999999999987432222 2222222221       66855 6799999974321 22333466


Q ss_pred             HHHHHHcC----CCcEEEecCCCCC----------ChHHHHHHHHHHH
Q 028305          147 LEWCAYRG----NIPYFETSAKEDC----------NIDEAFLCVAEIA  180 (210)
Q Consensus       147 ~~~~~~~~----~~~~~~~Sa~~~~----------~v~~~~~~l~~~~  180 (210)
                      ..++...+    ..+++++||.+|.          ++.++++.|...+
T Consensus       155 ~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        155 RELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             HHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            66666654    3679999999985          4566666666543

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.82  E-value=1.4e-19  Score=116.89  Aligned_cols=165  Identities=22%  Similarity=0.270  Sum_probs=122.8

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......++|+++|-.++|||||+..|.+.... ...|+.+  +..+.+.+++ .+.+++||.+|+...+..|..|+.+.|
T Consensus        12 s~t~rEirilllGldnAGKTT~LKqL~sED~~-hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd   87 (185)
T KOG0074|consen   12 SRTRREIRILLLGLDNAGKTTFLKQLKSEDPR-HLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVD   87 (185)
T ss_pred             CCCcceEEEEEEecCCCcchhHHHHHccCChh-hccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccc
Confidence            34477899999999999999999999876654 2233443  4455566655 378999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|||+|.++...|+.+..-+.++...   .+...+|+.+.+||.|+.-..+.+...........+.+...+-++|+..+
T Consensus        88 ~lIyVIDS~D~krfeE~~~el~ELlee---eKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals~  164 (185)
T KOG0074|consen   88 GLIYVIDSTDEKRFEEISEELVELLEE---EKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALSL  164 (185)
T ss_pred             eEEEEEeCCchHhHHHHHHHHHHHhhh---hhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCccccc
Confidence            999999988888888887766666543   33347899999999998654322222222222222223467899999999


Q ss_pred             CChHHHHHHHHH
Q 028305          167 CNIDEAFLCVAE  178 (210)
Q Consensus       167 ~~v~~~~~~l~~  178 (210)
                      +|+.+-.+|+..
T Consensus       165 eg~~dg~~wv~s  176 (185)
T KOG0074|consen  165 EGSTDGSDWVQS  176 (185)
T ss_pred             cCccCcchhhhc
Confidence            999988888764

>PRK12736 elongation factor Tu; Reviewed

Probab=99.81  E-value=1.1e-18  Score=136.85  Aligned_cols=165  Identities=15%  Similarity=0.091  Sum_probs=108.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ....+.++|+++|+.++|||||+++|++...                ..+...+.+.+..  ...+......+.++||||
T Consensus         7 ~~~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~--~~~~~~~~~~i~~iDtPG   84 (394)
T PRK12736          7 DRSKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTA--HVEYETEKRHYAHVDCPG   84 (394)
T ss_pred             ccCCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEE--eeEecCCCcEEEEEECCC
Confidence            3467789999999999999999999985211                0111333344443  333433446788999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCCc-ccchHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSSR-VVPQKKALE  148 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~~-~~~~~~~~~  148 (210)
                      +.+|.......+..+|++++|+|.+....-... ..+..+...       ++| +|+++||+|+.+.... +...+++..
T Consensus        85 h~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~-~~~~~~~~~-------g~~~~IvviNK~D~~~~~~~~~~i~~~i~~  156 (394)
T PRK12736         85 HADYVKNMITGAAQMDGAILVVAATDGPMPQTR-EHILLARQV-------GVPYLVVFLNKVDLVDDEELLELVEMEVRE  156 (394)
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEECCCCCchhHH-HHHHHHHHc-------CCCEEEEEEEecCCcchHHHHHHHHHHHHH
Confidence            998877777777889999999999864322221 222222221       667 6789999999743211 122345666


Q ss_pred             HHHHcC----CCcEEEecCCCCC--------ChHHHHHHHHHHHH
Q 028305          149 WCAYRG----NIPYFETSAKEDC--------NIDEAFLCVAEIAL  181 (210)
Q Consensus       149 ~~~~~~----~~~~~~~Sa~~~~--------~v~~~~~~l~~~~~  181 (210)
                      ++...+    ..+++++||++|.        ++.++++.+.+.+.
T Consensus       157 ~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        157 LLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             HHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence            665554    2689999999983        45666666665543

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.81  E-value=1.6e-18  Score=136.06  Aligned_cols=165  Identities=12%  Similarity=0.042  Sum_probs=105.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      +..+.++|+++|+.++|||||+++|++...                ..+...+.+.+..  ...++..+..+.+|||||+
T Consensus         8 ~~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~--~~~~~~~~~~~~liDtpGh   85 (394)
T TIGR00485         8 RTKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTA--HVEYETENRHYAHVDCPGH   85 (394)
T ss_pred             CCCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeE--EEEEcCCCEEEEEEECCch
Confidence            456789999999999999999999973200                1112234444443  3334444567899999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEE-EEEecCCCCCCCC-cccchHHHHHH
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV-LLGNKIDTDGGSS-RVVPQKKALEW  149 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~i-lv~~K~D~~~~~~-~~~~~~~~~~~  149 (210)
                      ++|.......+..+|++++|+|+......... ..+..+...       ++|.+ +++||+|+.+... .+...+++..+
T Consensus        86 ~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~-e~l~~~~~~-------gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~  157 (394)
T TIGR00485        86 ADYVKNMITGAAQMDGAILVVSATDGPMPQTR-EHILLARQV-------GVPYIVVFLNKCDMVDDEELLELVEMEVREL  157 (394)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH-HHHHHHHHc-------CCCEEEEEEEecccCCHHHHHHHHHHHHHHH
Confidence            98877777777889999999999874322222 222222221       56655 6899999975321 12223456667


Q ss_pred             HHHcCC----CcEEEecCCCCC-ChHHHHH---HHHHHHHh
Q 028305          150 CAYRGN----IPYFETSAKEDC-NIDEAFL---CVAEIALK  182 (210)
Q Consensus       150 ~~~~~~----~~~~~~Sa~~~~-~v~~~~~---~l~~~~~~  182 (210)
                      +...+.    ++++++||.+|. |..++.+   .+++++.+
T Consensus       158 l~~~~~~~~~~~ii~vSa~~g~~g~~~~~~~~~~ll~~l~~  198 (394)
T TIGR00485       158 LSEYDFPGDDTPIIRGSALKALEGDAEWEAKILELMDAVDE  198 (394)
T ss_pred             HHhcCCCccCccEEECccccccccCCchhHhHHHHHHHHHh
Confidence            766652    789999999875 3333332   34444444

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.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.80  E-value=1.7e-18  Score=126.73  Aligned_cols=161  Identities=20%  Similarity=0.170  Sum_probs=121.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc----cccccc---cc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ----SLGSAF---YR   83 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~~~~~---~~   83 (210)
                      ....|.+||.||+|||||++++..........+.++..+....+.+++. ..+.+-|.||..+=.    .+-..+   ++
T Consensus       195 siadvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLrHiE  273 (366)
T KOG1489|consen  195 SIADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLRHIE  273 (366)
T ss_pred             eecccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeecccc-ceeEeccCccccccccccCcccHHHHHHHH
Confidence            3456889999999999999999988877666677777777777777664 348899999933221    222223   56


Q ss_pred             CCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           84 GADCCVLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        84 ~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      .++.++||+|++.+   ..|+.+...+.++..+....  .+.|.++|+||+|+.+.     ....+.++++......+++
T Consensus       274 R~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L--~~rp~liVaNKiD~~ea-----e~~~l~~L~~~lq~~~V~p  346 (366)
T KOG1489|consen  274 RCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGL--ADRPALIVANKIDLPEA-----EKNLLSSLAKRLQNPHVVP  346 (366)
T ss_pred             hhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhh--ccCceEEEEeccCchhH-----HHHHHHHHHHHcCCCcEEE
Confidence            78999999999998   88888888777776654432  26799999999998632     1223467777777667999


Q ss_pred             ecCCCCCChHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +||+.++|+.++++.|.+.
T Consensus       347 vsA~~~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  347 VSAKSGEGLEELLNGLREL  365 (366)
T ss_pred             eeeccccchHHHHHHHhhc
Confidence            9999999999999988754

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.80  E-value=1.8e-18  Score=125.48  Aligned_cols=157  Identities=17%  Similarity=0.127  Sum_probs=99.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccce--------------eee---------EEEEEE-------------EEeC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT--------------IGA---------DFVTKE-------------LQMD   57 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~--------------~~~---------~~~~~~-------------~~~~   57 (210)
                      ||+++|+.++|||||+++|..+.+.......              .+.         +.....             ....
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            5899999999999999999976664211110              000         000000             0011


Q ss_pred             CeEEEEEEEeCCCccccccccccccc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYR--GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .....+.++||||+.++.......+.  .+|++++|+|++....-.. ..++..+...       ++|+++|+||+|+.+
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d-~~~l~~l~~~-------~ip~ivvvNK~D~~~  152 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMT-KEHLGLALAL-------NIPVFVVVTKIDLAP  152 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCEEEEEECccccC
Confidence            12356889999999988666555554  6899999999886543222 2233333222       779999999999865


Q ss_pred             CCCcccchHHHHHHHHH-------------------------cCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          136 GSSRVVPQKKALEWCAY-------------------------RGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~-------------------------~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      ........+++..+...                         ....+++.+|+.+|.|+++++..|..
T Consensus       153 ~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         153 ANILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            43233333344444331                         11358999999999999999987754

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

>CHL00071 tufA elongation factor Tu

Probab=99.80  E-value=5.5e-18  Score=133.56  Aligned_cols=156  Identities=14%  Similarity=0.072  Sum_probs=104.4

Q ss_pred             cccccccceEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEe
Q 028305            4 SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWD   67 (210)
Q Consensus         4 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   67 (210)
                      ..-....+.++|+++|++++|||||+++|++..-                ..+...+.+.+.....  +......+.++|
T Consensus         4 ~~~~~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~--~~~~~~~~~~iD   81 (409)
T CHL00071          4 EKFERKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVE--YETENRHYAHVD   81 (409)
T ss_pred             hhccCCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEE--EccCCeEEEEEE
Confidence            3445567889999999999999999999986411                0112234444433333  333345688999


Q ss_pred             CCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHH
Q 028305           68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKK  145 (210)
Q Consensus        68 ~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~  145 (210)
                      |||+.++.......+..+|++++|+|......-.. ...+..+...       ++| +|+++||+|+.+... .+...++
T Consensus        82 tPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt-~~~~~~~~~~-------g~~~iIvvvNK~D~~~~~~~~~~~~~~  153 (409)
T CHL00071         82 CPGHADYVKNMITGAAQMDGAILVVSAADGPMPQT-KEHILLAKQV-------GVPNIVVFLNKEDQVDDEELLELVELE  153 (409)
T ss_pred             CCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCEEEEEEEccCCCCHHHHHHHHHHH
Confidence            99999887777778889999999999986432222 2222222221       668 778999999975321 2223346


Q ss_pred             HHHHHHHcC----CCcEEEecCCCCCCh
Q 028305          146 ALEWCAYRG----NIPYFETSAKEDCNI  169 (210)
Q Consensus       146 ~~~~~~~~~----~~~~~~~Sa~~~~~v  169 (210)
                      +..+++..+    ..+++++||.+|.|+
T Consensus       154 l~~~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        154 VRELLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             HHHHHHHhCCCCCcceEEEcchhhcccc
Confidence            666666554    268999999998754

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.79  E-value=1.7e-19  Score=116.88  Aligned_cols=164  Identities=21%  Similarity=0.260  Sum_probs=118.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ...+++++|-.|+|||++..++--+... ...|+++......    ...++++++||..|+-..+..|.-|+.+.|++||
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgevv-ttkPtigfnve~v----~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIGFNVETV----PYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCCcCcccc----ccccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            7889999999999999999888755543 3455555444322    2266899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchH-HHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK-KALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      |+|.+|.+........+..+   +.....++..+++++||.|......+..... ......+. +...++++||.+|+|+
T Consensus        92 VVDssd~dris~a~~el~~m---L~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~-r~~~Iv~tSA~kg~Gl  167 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSM---LQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKD-RIWQIVKTSAVKGEGL  167 (182)
T ss_pred             EEeccchhhhhhhHHHHHHH---hccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhh-heeEEEeeccccccCC
Confidence            99999987665544322222   2223333667899999999876433222222 22222333 3488999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 028305          170 DEAFLCVAEIALKN  183 (210)
Q Consensus       170 ~~~~~~l~~~~~~~  183 (210)
                      +.+++|+.+-+.+.
T Consensus       168 d~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  168 DPAMDWLQRPLKSR  181 (182)
T ss_pred             cHHHHHHHHHHhcc
Confidence            99999999877543

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.79  E-value=1.9e-18  Score=138.46  Aligned_cols=158  Identities=21%  Similarity=0.213  Sum_probs=118.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc------cccccc--c
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS------LGSAFY--R   83 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--~   83 (210)
                      ..+|+++|+||+|||||.|+|++........|+++.+.........+..  +.+.|+||--.+..      ....++  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCce--EEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            3469999999999999999999998888889999988888888877754  88889999332221      112222  3


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|++|-|.|.+|-+.--.+.-.+.++          +.|++++.|++|.........   +.+.+.+..+ ++++++||
T Consensus        81 ~~D~ivnVvDAtnLeRnLyltlQLlE~----------g~p~ilaLNm~D~A~~~Gi~I---D~~~L~~~LG-vPVv~tvA  146 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLTLQLLEL----------GIPMILALNMIDEAKKRGIRI---DIEKLSKLLG-VPVVPTVA  146 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHHHHHHHc----------CCCeEEEeccHhhHHhcCCcc---cHHHHHHHhC-CCEEEEEe
Confidence            579999999999865433332222222          789999999999876432233   3344455667 99999999


Q ss_pred             CCCCChHHHHHHHHHHHHhccc
Q 028305          164 KEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++|.|++++...+.+.......
T Consensus       147 ~~g~G~~~l~~~i~~~~~~~~~  168 (653)
T COG0370         147 KRGEGLEELKRAIIELAESKTT  168 (653)
T ss_pred             ecCCCHHHHHHHHHHhcccccc
Confidence            9999999999999987766653

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=2.3e-18  Score=124.69  Aligned_cols=149  Identities=23%  Similarity=0.144  Sum_probs=95.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcc-----------------cceeeeEEEE--EEEEe---CCeEEEEEEEeCCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQY-----------------KATIGADFVT--KELQM---DDKLVTLQIWDTAGQ   71 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~-----------------~~~~~~~~~~--~~~~~---~~~~~~~~i~D~~g~   71 (210)
                      +|+++|+.|+|||||+++|+........                 ....+.....  ..+..   ++..+.+.+|||||+
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            6899999999999999999865432110                 0111112111  11111   355688999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------Cccc
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVV  141 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~  141 (210)
                      .++......++..+|++++|+|..+..+... ..++.....       .++|+++|+||+|+...+          ....
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~-------~~~p~iiviNK~D~~~~~~~l~~~~~~~~l~~  153 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL-------EGLPIVLVINKIDRLILELKLPPNDAYFKLRH  153 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH-------cCCCEEEEEECcccCcccccCCHHHHHHHHHH
Confidence            9988888888999999999999987765543 233333322       157999999999985211          0111


Q ss_pred             chHHHHHHHHHcCC----------CcEEEecCCCCCChH
Q 028305          142 PQKKALEWCAYRGN----------IPYFETSAKEDCNID  170 (210)
Q Consensus       142 ~~~~~~~~~~~~~~----------~~~~~~Sa~~~~~v~  170 (210)
                      ..+++..++.....          ..+++.|++.+-++.
T Consensus       154 ~i~~~n~~~~~~~~~~~~~~~p~~~nv~~~s~~~~w~~~  192 (213)
T cd04167         154 IIDEVNNIIASFSTTLSFLFSPENGNVCFASSKFGFCFT  192 (213)
T ss_pred             HHHHHHHHHHHhcCCCceEeccCCCeEEEEecCCCeEEe
Confidence            22333444443321          227788998876654

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.

>cd04169 RF3 RF3 subfamily

Probab=99.79  E-value=9.4e-18  Score=124.80  Aligned_cols=116  Identities=18%  Similarity=0.236  Sum_probs=78.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCccc---------c-----------eeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYK---------A-----------TIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~---------~-----------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      .+|+++|++|+|||||+++|+...-.-...         .           ..+.++......++....++.+|||||+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            579999999999999999997432110000         0           01122333333444455889999999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +|.......++.+|++|+|+|.++..... ...++.....       .++|+++++||+|+...
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~~-~~~i~~~~~~-------~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEPQ-TRKLFEVCRL-------RGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccHH-HHHHHHHHHh-------cCCCEEEEEECCccCCC
Confidence            88877777889999999999998753322 2233333322       17799999999997543

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.78  E-value=1.1e-17  Score=119.61  Aligned_cols=162  Identities=17%  Similarity=0.227  Sum_probs=97.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeee-EEE--EEEEEeCCeEEEEEEEeCCCccccccccccc-----cc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGA-DFV--TKELQMDDKLVTLQIWDTAGQERFQSLGSAF-----YR   83 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~--~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~-----~~   83 (210)
                      +++|+++|.+|+|||||+|.|++...........+. ...  ...+.. .....+.+|||||..+.......+     +.
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~   79 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPH-PKFPNVTLWDLPGIGSTAFPPDDYLEEMKFS   79 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeec-CCCCCceEEeCCCCCcccCCHHHHHHHhCcc
Confidence            479999999999999999999976543221111110 110  111111 112368999999965432222222     56


Q ss_pred             CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC---------cccchHHHHHHHH--
Q 028305           84 GADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS---------RVVPQKKALEWCA--  151 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~---------~~~~~~~~~~~~~--  151 (210)
                      .+|+++++.+-    .+... ..|+..+...       +.|+++|+||+|+.....         .....+++++.+.  
T Consensus        80 ~~d~~l~v~~~----~~~~~d~~~~~~l~~~-------~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~  148 (197)
T cd04104          80 EYDFFIIISST----RFSSNDVKLAKAIQCM-------GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLEN  148 (197)
T ss_pred             CcCEEEEEeCC----CCCHHHHHHHHHHHHh-------CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHH
Confidence            78888887432    22222 3444555443       569999999999843211         1122222222222  


Q ss_pred             --H--cCCCcEEEecCC--CCCChHHHHHHHHHHHHhccc
Q 028305          152 --Y--RGNIPYFETSAK--EDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       152 --~--~~~~~~~~~Sa~--~~~~v~~~~~~l~~~~~~~~~  185 (210)
                        .  .....++.+|+.  .+.++..+.+.++..+.+.++
T Consensus       149 ~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~  188 (197)
T cd04104         149 LQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKR  188 (197)
T ss_pred             HHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence              2  123578999998  679999999999999987654

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

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.78  E-value=5.5e-19  Score=138.39  Aligned_cols=168  Identities=21%  Similarity=0.271  Sum_probs=120.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      -...++|+++|+.|+||||||-+|....|.+..++....-.  ....+....+...+.|++...+-.......++.+|++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~--IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRIL--IPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccc--cCCccCcCcCceEEEecccccchhHHHHHHHhhcCEE
Confidence            35689999999999999999999999998865444332222  2234445557789999987666556667778999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC-CCcEEEecCCCC
Q 028305           89 VLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG-NIPYFETSAKED  166 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~  166 (210)
                      +++|+++++.+++.+. +|+..+.+...  ...++|+|+|+||+|......... +....-+...+. .-..+++||++.
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~--~~~~~PVILvGNK~d~~~~~~~s~-e~~~~pim~~f~EiEtciecSA~~~  160 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFG--DYHETPVILVGNKSDNGDNENNSD-EVNTLPIMIAFAEIETCIECSALTL  160 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccC--CCccCCEEEEeeccCCccccccch-hHHHHHHHHHhHHHHHHHhhhhhhh
Confidence            9999999999999986 56655554431  123789999999999975532211 112222222222 234899999999


Q ss_pred             CChHHHHHHHHHHHH
Q 028305          167 CNIDEAFLCVAEIAL  181 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~  181 (210)
                      .++.++|...-.++.
T Consensus       161 ~n~~e~fYyaqKaVi  175 (625)
T KOG1707|consen  161 ANVSELFYYAQKAVI  175 (625)
T ss_pred             hhhHhhhhhhhheee
Confidence            999999988766653

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.78  E-value=7.7e-18  Score=131.53  Aligned_cols=169  Identities=22%  Similarity=0.227  Sum_probs=124.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCC-eEEEEEEEeCCCcccccccccccccCCcEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+++-|+++|+..-|||||+..+...........+.+....-..+..+. ....+.|+|||||+.|..+...-..-+|++
T Consensus         3 ~R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIa   82 (509)
T COG0532           3 LRPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIA   82 (509)
T ss_pred             CCCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEE
Confidence            3567799999999999999999998888777666676666655555542 235699999999999999999999999999


Q ss_pred             EEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH---HHHHHcCCCcEEEec
Q 028305           89 VLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL---EWCAYRGNIPYFETS  162 (210)
Q Consensus        89 i~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~S  162 (210)
                      |||+++++.   ++.+.+..    .+..       ++|+++++||+|..+..+..+..+...   .--...+.+.++++|
T Consensus        83 ILVVa~dDGv~pQTiEAI~h----ak~a-------~vP~iVAiNKiDk~~~np~~v~~el~~~gl~~E~~gg~v~~VpvS  151 (509)
T COG0532          83 ILVVAADDGVMPQTIEAINH----AKAA-------GVPIVVAINKIDKPEANPDKVKQELQEYGLVPEEWGGDVIFVPVS  151 (509)
T ss_pred             EEEEEccCCcchhHHHHHHH----HHHC-------CCCEEEEEecccCCCCCHHHHHHHHHHcCCCHhhcCCceEEEEee
Confidence            999999984   44444322    2111       889999999999986543222222111   111222357799999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccccccc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      |++|+|+.+|+..++-.+...+.+...
T Consensus       152 A~tg~Gi~eLL~~ill~aev~elka~~  178 (509)
T COG0532         152 AKTGEGIDELLELILLLAEVLELKANP  178 (509)
T ss_pred             ccCCCCHHHHHHHHHHHHHHHhhhcCC
Confidence            999999999999999888777554443

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=1.7e-17  Score=122.34  Aligned_cols=162  Identities=21%  Similarity=0.220  Sum_probs=116.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc-cc-cccc-------ccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ-ER-FQSL-------GSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-~~-~~~~-------~~~   80 (210)
                      ...+.|+|.|.||+|||||++++.+......+.|.++-.....++...+  ..++++||||. ++ ....       ...
T Consensus       166 p~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~--~R~QvIDTPGlLDRPl~ErN~IE~qAi~A  243 (346)
T COG1084         166 PDLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGY--LRIQVIDTPGLLDRPLEERNEIERQAILA  243 (346)
T ss_pred             CCCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCC--ceEEEecCCcccCCChHHhcHHHHHHHHH
Confidence            4678999999999999999999999988877777777777777776655  67899999991 11 1111       111


Q ss_pred             cccCCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           81 FYRGADCCVLVYDVNVQK--TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      .-.-.++++|+||.+...  +.+.-..++..+....      +.|+++|.||+|....    ...+++.......+....
T Consensus       244 L~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f------~~p~v~V~nK~D~~~~----e~~~~~~~~~~~~~~~~~  313 (346)
T COG1084         244 LRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELF------KAPIVVVINKIDIADE----EKLEEIEASVLEEGGEEP  313 (346)
T ss_pred             HHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhc------CCCeEEEEecccccch----hHHHHHHHHHHhhccccc
Confidence            122368999999998754  4455556666766554      4699999999998742    233444444555555667


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ..+++..+.+++.+-..+...+.+.
T Consensus       314 ~~~~~~~~~~~d~~~~~v~~~a~~~  338 (346)
T COG1084         314 LKISATKGCGLDKLREEVRKTALEP  338 (346)
T ss_pred             cceeeeehhhHHHHHHHHHHHhhch
Confidence            8889999999998888887776554

>PLN03126 Elongation factor Tu; Provisional

Probab=99.77  E-value=2.9e-17  Score=130.78  Aligned_cols=151  Identities=15%  Similarity=0.093  Sum_probs=102.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ...+.++|+++|++++|||||+++|+....                ..+...+.+++.....+..+  ...+.++|+||+
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~--~~~i~liDtPGh  154 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETE--NRHYAHVDCPGH  154 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecC--CcEEEEEECCCH
Confidence            356789999999999999999999985211                11223334444433334333  457899999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHHH
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALEW  149 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~~  149 (210)
                      .+|.......+..+|++++|+|......-.. ..++..+...       ++| +++++||+|+.+.+. .+...+++..+
T Consensus       155 ~~f~~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~~-------gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~  226 (478)
T PLN03126        155 ADYVKNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQV-------GVPNMVVFLNKQDQVDDEELLELVELEVREL  226 (478)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCeEEEEEecccccCHHHHHHHHHHHHHHH
Confidence            9998888888889999999999986533332 2233333222       667 788999999975321 22233456666


Q ss_pred             HHHcC----CCcEEEecCCCCCC
Q 028305          150 CAYRG----NIPYFETSAKEDCN  168 (210)
Q Consensus       150 ~~~~~----~~~~~~~Sa~~~~~  168 (210)
                      +...+    ..+++++|+.+|.+
T Consensus       227 l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        227 LSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             HHhcCCCcCcceEEEEEcccccc
Confidence            66542    47899999998854

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.77  E-value=1.4e-18  Score=137.69  Aligned_cols=153  Identities=19%  Similarity=0.239  Sum_probs=104.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC-------------------------------CCcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF-------------------------------SQQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   57 (210)
                      ..+.++|+++|+.++|||||+.+|+...-                               ..+...+.+++.  ....+.
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~--~~~~~~   81 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDI--ALWKFE   81 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEE--EEEEec
Confidence            46789999999999999999998873211                               011122233333  333344


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHH-------HHHHHHHHHHHhcCCCCCCCC-CEEEEEe
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFE-------SLQNWREEFLKQADPGEHEAC-PFVLLGN  129 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~-------~~~~~~~~l~~~~~~~~~~~~-p~ilv~~  129 (210)
                      ..+..+.++|+||+.+|.......+..+|++|+|+|+++. .++       .....+..+...       ++ ++|+++|
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~~-------gi~~iIV~vN  153 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFTL-------GVKQMICCCN  153 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHHc-------CCCcEEEEEE
Confidence            4557899999999999999999999999999999999873 222       222222222111       56 4788999


Q ss_pred             cCCCCCCC----CcccchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          130 KIDTDGGS----SRVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       130 K~D~~~~~----~~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      |+|+.+..    ......+++..+++..+    .++++++||.+|+|+.+
T Consensus       154 KmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        154 KMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             cccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            99986211    12334567777777666    36799999999999864

>COG2262 HflX GTPases [General function prediction only]

Probab=99.77  E-value=2.2e-17  Score=125.22  Aligned_cols=166  Identities=20%  Similarity=0.139  Sum_probs=119.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc--cccc------c
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF--QSLG------S   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--~~~~------~   79 (210)
                      .....+.|.++|..|+|||||+|+|.+........-..+.+.+...+...+ ...+.+-||-|.-..  ..+.      .
T Consensus       188 ~~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTL  266 (411)
T COG2262         188 SRSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTL  266 (411)
T ss_pred             cccCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHH
Confidence            345788999999999999999999997766555555566677677776654 355788899994431  1111      2


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .....+|+++.|+|+++|...+.+......+......    .+|+|+|.||+|+.....       ......... ...+
T Consensus       267 EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~----~~p~i~v~NKiD~~~~~~-------~~~~~~~~~-~~~v  334 (411)
T COG2262         267 EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGAD----EIPIILVLNKIDLLEDEE-------ILAELERGS-PNPV  334 (411)
T ss_pred             HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCC----CCCEEEEEecccccCchh-------hhhhhhhcC-CCeE
Confidence            2246799999999999997777766666666554222    689999999999875421       222222222 2689


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      .+||++|.|++.+++.|.+.+......
T Consensus       335 ~iSA~~~~gl~~L~~~i~~~l~~~~~~  361 (411)
T COG2262         335 FISAKTGEGLDLLRERIIELLSGLRTE  361 (411)
T ss_pred             EEEeccCcCHHHHHHHHHHHhhhcccc
Confidence            999999999999999999998865443

>PRK00049 elongation factor Tu; Reviewed

Probab=99.77  E-value=2.8e-17  Score=129.01  Aligned_cols=153  Identities=13%  Similarity=0.081  Sum_probs=101.0

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcC----------------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKF----------------SQQYKATIGADFVTKELQMDDKLVTLQIWDTA   69 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   69 (210)
                      -.+..+.++|+++|+.++|||||+++|++...                ..+...+.+.+...  ..+......+.++|||
T Consensus         6 ~~~~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~--~~~~~~~~~i~~iDtP   83 (396)
T PRK00049          6 FERTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAH--VEYETEKRHYAHVDCP   83 (396)
T ss_pred             ccCCCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeE--EEEcCCCeEEEEEECC
Confidence            34567889999999999999999999986311                01123344444433  3333334568899999


Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEE-EEEecCCCCCCCC-cccchHHHH
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV-LLGNKIDTDGGSS-RVVPQKKAL  147 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~i-lv~~K~D~~~~~~-~~~~~~~~~  147 (210)
                      |+.+|.......+..+|++++|+|......-.. ...+..+...       ++|.+ +++||+|+.+... .+...+++.
T Consensus        84 G~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt-~~~~~~~~~~-------g~p~iiVvvNK~D~~~~~~~~~~~~~~i~  155 (396)
T PRK00049         84 GHADYVKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQV-------GVPYIVVFLNKCDMVDDEELLELVEMEVR  155 (396)
T ss_pred             CHHHHHHHHHhhhccCCEEEEEEECCCCCchHH-HHHHHHHHHc-------CCCEEEEEEeecCCcchHHHHHHHHHHHH
Confidence            998887777778899999999999986532222 2222333222       67876 6899999974321 122334555


Q ss_pred             HHHHHcC----CCcEEEecCCCCCC
Q 028305          148 EWCAYRG----NIPYFETSAKEDCN  168 (210)
Q Consensus       148 ~~~~~~~----~~~~~~~Sa~~~~~  168 (210)
                      .+....+    ..+++++||.+|.+
T Consensus       156 ~~l~~~~~~~~~~~iv~iSa~~g~~  180 (396)
T PRK00049        156 ELLSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             HHHHhcCCCccCCcEEEeecccccC
Confidence            5555543    37899999998753

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.76  E-value=2e-17  Score=123.77  Aligned_cols=113  Identities=22%  Similarity=0.313  Sum_probs=77.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcc------------------cceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQY------------------KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      +|+++|++|+|||||+++|+........                  ....+.......+..+  ...+.+|||||+.++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~--~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWK--GHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEEC--CEEEEEEECcCHHHHH
Confidence            5899999999999999999753221000                  0011122222233333  3678999999998887


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ......++.+|++++|+|.++.........| ..+...       ++|.++++||+|+...
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~~-------~~p~iivvNK~D~~~~  131 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADEA-------GIPRIIFINKMDRERA  131 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHHc-------CCCEEEEEECCccCCC
Confidence            7888889999999999999886554433222 233221       6799999999998653

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.76  E-value=4.1e-17  Score=121.93  Aligned_cols=144  Identities=15%  Similarity=0.201  Sum_probs=96.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCc----------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc---
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ----------YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL---   77 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~---   77 (210)
                      ..|+|+|+|.+|+|||||+|+|++..+...          ..++.........+..++..+.+.+|||||..+....   
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            478999999999999999999998776533          2344455555666667788899999999994432110   


Q ss_pred             -----------------------cccccc--CCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           78 -----------------------GSAFYR--GADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        78 -----------------------~~~~~~--~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                                             ....+.  .+|+++|+++.+... .... ...++.+.   .     ++|+++|+||+
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l~---~-----~v~vi~VinK~  153 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRLS---K-----RVNIIPVIAKA  153 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHh---c-----cCCEEEEEECC
Confidence                                   101222  467888888876421 1111 22233332   1     57999999999


Q ss_pred             CCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305          132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus       132 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      |+..........+.+.+.+..++ +.++.....
T Consensus       154 D~l~~~e~~~~k~~i~~~l~~~~-i~~~~~~~~  185 (276)
T cd01850         154 DTLTPEELKEFKQRIMEDIEEHN-IKIYKFPED  185 (276)
T ss_pred             CcCCHHHHHHHHHHHHHHHHHcC-CceECCCCC
Confidence            99654334556677777788777 788876653

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.

>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=3.8e-18  Score=123.26  Aligned_cols=165  Identities=19%  Similarity=0.258  Sum_probs=103.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcc-cceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc-----ccccccCCcE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQY-KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL-----GSAFYRGADC   87 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----~~~~~~~~d~   87 (210)
                      ||+++|+.+|||||+.+.+..+..+.+. .-+.+.+.....+... ..+.+.+||+||+..+...     ....++++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~-~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~   79 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFL-SFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGV   79 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECT-TSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecC-CCcEEEEEEcCCccccccccccccHHHHHhccCE
Confidence            7999999999999999888765544222 2223334433333322 3478999999998766554     3566799999


Q ss_pred             EEEEEECCChhhHHHHHHH---HHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc----hHHHHHHHHHcC--CCcE
Q 028305           88 CVLVYDVNVQKTFESLQNW---REEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP----QKKALEWCAYRG--NIPY  158 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~---~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~----~~~~~~~~~~~~--~~~~  158 (210)
                      +|||+|+.+.+..+.+.++   +..+.+...     ++.+.++++|+|+.....+...    .+++.+.+...+  .+.+
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp-----~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~  154 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYSP-----NIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITF  154 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHST-----T-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEE
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhCC-----CCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEE
Confidence            9999999855544444444   334444433     7789999999999765433322    233333444333  3678


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +.||..+ ..+-++|..+++.+..+..
T Consensus       155 ~~TSI~D-~Sly~A~S~Ivq~LiP~~~  180 (232)
T PF04670_consen  155 FLTSIWD-ESLYEAWSKIVQKLIPNLS  180 (232)
T ss_dssp             EEE-TTS-THHHHHHHHHHHTTSTTHC
T ss_pred             EeccCcC-cHHHHHHHHHHHHHcccHH
Confidence            9999888 5999999999999876544

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.75  E-value=4.3e-17  Score=129.15  Aligned_cols=165  Identities=16%  Similarity=0.096  Sum_probs=103.8

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhC------cC----------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYN------KF----------SQQYKATIGADFVTKELQMDDKLVTLQIWDTA   69 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   69 (210)
                      .....+.++|+++|+.++|||||+++|.+.      ..          ..+...+.+++.....+.  ....++.++|||
T Consensus        55 ~~~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~--~~~~~i~~iDtP  132 (447)
T PLN03127         55 FTRTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYE--TAKRHYAHVDCP  132 (447)
T ss_pred             hhcCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEc--CCCeEEEEEECC
Confidence            344578899999999999999999999621      10          112234445554444433  344678999999


Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCCc-ccchHHHH
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSSR-VVPQKKAL  147 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~~-~~~~~~~~  147 (210)
                      |+.+|.......+..+|++++|+|......-.. ...+..+...       ++| +|+++||+|+.+.... +...+++.
T Consensus       133 Gh~~f~~~~~~g~~~aD~allVVda~~g~~~qt-~e~l~~~~~~-------gip~iIvviNKiDlv~~~~~~~~i~~~i~  204 (447)
T PLN03127        133 GHADYVKNMITGAAQMDGGILVVSAPDGPMPQT-KEHILLARQV-------GVPSLVVFLNKVDVVDDEELLELVEMELR  204 (447)
T ss_pred             CccchHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHHc-------CCCeEEEEEEeeccCCHHHHHHHHHHHHH
Confidence            998887777667778999999999876432222 2222222221       678 5788999999753211 11222444


Q ss_pred             HHHHHcC----CCcEEEecCC---CCCC-------hHHHHHHHHHHH
Q 028305          148 EWCAYRG----NIPYFETSAK---EDCN-------IDEAFLCVAEIA  180 (210)
Q Consensus       148 ~~~~~~~----~~~~~~~Sa~---~~~~-------v~~~~~~l~~~~  180 (210)
                      .+....+    .++++++|+.   +|.|       +.++++.+.+.+
T Consensus       205 ~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        205 ELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             HHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhC
Confidence            4444322    3678888875   5555       556666665544

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.75  E-value=1.7e-16  Score=116.81  Aligned_cols=161  Identities=20%  Similarity=0.172  Sum_probs=117.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-------ccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-------FQSLGSA   80 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~   80 (210)
                      .+.-..+|+++|+|++|||||+++|.+........+.++.......+.+++  .++++.|+||.-+       -......
T Consensus        59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vls  136 (365)
T COG1163          59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLS  136 (365)
T ss_pred             eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeee
Confidence            456678999999999999999999998877766667777777788888877  6789999998221       1234567


Q ss_pred             cccCCcEEEEEEECCChhh-HHHHHHHHHHH-------------------------------------------------
Q 028305           81 FYRGADCCVLVYDVNVQKT-FESLQNWREEF-------------------------------------------------  110 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l-------------------------------------------------  110 (210)
                      .+++||++++|+|+..+.. .+.+...+...                                                 
T Consensus       137 v~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA  216 (365)
T COG1163         137 VARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNA  216 (365)
T ss_pred             eeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccc
Confidence            7899999999999986554 33333322221                                                 


Q ss_pred             -------------HHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHH
Q 028305          111 -------------LKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus       111 -------------~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  177 (210)
                                   ......+ ..-+|.+.|.||.|+.+       .++...+.+.   ..++++||+.+.|++++.+.|-
T Consensus       217 ~V~Ir~dvTlDd~id~l~~n-rvY~p~l~v~NKiD~~~-------~e~~~~l~~~---~~~v~isa~~~~nld~L~e~i~  285 (365)
T COG1163         217 DVLIREDVTLDDLIDALEGN-RVYKPALYVVNKIDLPG-------LEELERLARK---PNSVPISAKKGINLDELKERIW  285 (365)
T ss_pred             eEEEecCCcHHHHHHHHhhc-ceeeeeEEEEecccccC-------HHHHHHHHhc---cceEEEecccCCCHHHHHHHHH
Confidence                         1111111 11579999999999875       2444444443   3799999999999999999999


Q ss_pred             HHHH
Q 028305          178 EIAL  181 (210)
Q Consensus       178 ~~~~  181 (210)
                      +.+-
T Consensus       286 ~~L~  289 (365)
T COG1163         286 DVLG  289 (365)
T ss_pred             HhhC
Confidence            8864

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.75  E-value=2.2e-17  Score=131.98  Aligned_cols=156  Identities=17%  Similarity=0.130  Sum_probs=98.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc---------------------------------ccceeeeEEEEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ---------------------------------YKATIGADFVTKELQ   55 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~---------------------------------~~~~~~~~~~~~~~~   55 (210)
                      ....++|+++|++++|||||+.+|+...-.-.                                 ...+.+++.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            46789999999999999999999974421100                                 011222344333333


Q ss_pred             eCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           56 MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        56 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .  ....+.++||||+.+|.......+..+|++++|+|+.....-.....+ ..+ ....     ..|+++++||+|+.+
T Consensus       104 ~--~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~-~~lg-----~~~iIvvvNKiD~~~  174 (474)
T PRK05124        104 T--EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIA-TLLG-----IKHLVVAVNKMDLVD  174 (474)
T ss_pred             c--CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHH-HHhC-----CCceEEEEEeecccc
Confidence            3  346789999999998876666667899999999999764321111111 111 1111     237899999999974


Q ss_pred             CCC--cccchHHHHHHHHHcC---CCcEEEecCCCCCChHHHH
Q 028305          136 GSS--RVVPQKKALEWCAYRG---NIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus       136 ~~~--~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ...  .....+++..+....+   ..+++++||++|.|+.++-
T Consensus       175 ~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        175 YSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             chhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            321  1122223333333322   4789999999999998753

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.74  E-value=2e-17  Score=130.22  Aligned_cols=150  Identities=19%  Similarity=0.169  Sum_probs=96.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC---------------------------------CcccceeeeEEEEEEEEeCCe
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS---------------------------------QQYKATIGADFVTKELQMDDK   59 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~---------------------------------~~~~~~~~~~~~~~~~~~~~~   59 (210)
                      ++|+++|+.++|||||+.+|+...-.                                 .+...+.+++.....+..+  
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~--   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTD--   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccC--
Confidence            58999999999999999998633211                                 0111122334443444333  


Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR  139 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~  139 (210)
                      ..++.++||||+.+|.......+..+|++++|+|......-.....+ ..+. ...     ..++++++||+|+.+....
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~-~~~-----~~~iivviNK~D~~~~~~~  151 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIAS-LLG-----IRHVVLAVNKMDLVDYDEE  151 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHH-HcC-----CCcEEEEEEecccccchHH
Confidence            45789999999999877777778899999999999865322222222 1121 111     2368999999999753211


Q ss_pred             --ccchHHHHHHHHHcC--CCcEEEecCCCCCChHH
Q 028305          140 --VVPQKKALEWCAYRG--NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       140 --~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~  171 (210)
                        ....++...+....+  ..+++++||++|.|+.+
T Consensus       152 ~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       152 VFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence              112233444444443  35799999999999986

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=4.3e-17  Score=121.37  Aligned_cols=141  Identities=16%  Similarity=0.110  Sum_probs=91.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      +|+++|++|+|||||+++|+...-.                  .+...+.+++.....+...  ..++.+|||||+.++.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~--~~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWK--DHRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEEC--CEEEEEEECCCcHHHH
Confidence            5899999999999999999732110                  1112233333333444444  4678999999999888


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                      ..+...++.+|++++|+|..+...-.. ...+..+...       ++|+++++||+|+.+.. .....++++........
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~~-------~~p~ivviNK~D~~~a~-~~~~~~~l~~~l~~~~~  149 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADRY-------NVPRIAFVNKMDRTGAD-FFRVVEQIREKLGANPV  149 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHHc-------CCCEEEEEECCCCCCCC-HHHHHHHHHHHhCCCce
Confidence            888889999999999999987532222 2233333322       67999999999987532 22334444444433333


Q ss_pred             CcEEEecCCC
Q 028305          156 IPYFETSAKE  165 (210)
Q Consensus       156 ~~~~~~Sa~~  165 (210)
                      ..++++|+..
T Consensus       150 ~~~~Pisa~~  159 (270)
T cd01886         150 PLQLPIGEED  159 (270)
T ss_pred             EEEeccccCC
Confidence            3467777753

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

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.74  E-value=5.9e-17  Score=128.58  Aligned_cols=154  Identities=16%  Similarity=0.184  Sum_probs=103.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC-------------------------------CCcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF-------------------------------SQQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   57 (210)
                      +.+.++|+++|+.++|||||+.+|+...-                               ..+...+.+++.....+  .
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~--~   81 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKF--E   81 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEE--c
Confidence            46789999999999999999999874210                               01122333444433333  3


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhh---H---HHHHHHHHHHHHhcCCCCCCCCC-EEEEEec
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKT---F---ESLQNWREEFLKQADPGEHEACP-FVLLGNK  130 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~---~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K  130 (210)
                      .....+.++||||+.+|.......+..+|++++|+|.+....   +   ......+..+...       ++| +|+++||
T Consensus        82 ~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~-------gi~~iiv~vNK  154 (446)
T PTZ00141         82 TPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL-------GVKQMIVCINK  154 (446)
T ss_pred             cCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc-------CCCeEEEEEEc
Confidence            445779999999999998888888899999999999986421   0   1112222222222       556 6799999


Q ss_pred             CCCCC--C--CCcccchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          131 IDTDG--G--SSRVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       131 ~D~~~--~--~~~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      +|...  .  .......+++..++...+    .++++++|+.+|+|+.+
T Consensus       155 mD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        155 MDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             cccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            99532  1  113344555566555544    37799999999999964

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.74  E-value=3.6e-17  Score=118.24  Aligned_cols=113  Identities=20%  Similarity=0.197  Sum_probs=78.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC--C--------------cccceeeeEEEEEEEEeC--------CeEEEEEEEeCC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS--Q--------------QYKATIGADFVTKELQMD--------DKLVTLQIWDTA   69 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~--~--------------~~~~~~~~~~~~~~~~~~--------~~~~~~~i~D~~   69 (210)
                      +|+++|+.++|||||+.+|+...-.  .              +...+.++..........        +..+.+.+||||
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            7999999999999999999854311  0              001111111111122222        446889999999


Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      |+.+|......+++.+|++++|+|+...........+ ......       ++|+++|+||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l-~~~~~~-------~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVL-RQALKE-------RVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHH-HHHHHc-------CCCEEEEEECCCcc
Confidence            9999999999999999999999999986554442222 222211       67999999999985

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

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.74  E-value=6e-17  Score=126.31  Aligned_cols=162  Identities=18%  Similarity=0.174  Sum_probs=121.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC---------------Ccccceeee--EEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS---------------QQYKATIGA--DFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~--~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      +...++.++-+..-|||||..+|+...-.               .+...++++  +..... ..++..+.++++|||||-
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasif-y~~~~~ylLNLIDTPGHv  136 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIF-YKDGQSYLLNLIDTPGHV  136 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEE-EEcCCceEEEeecCCCcc
Confidence            56788999999999999999998733221               112222222  222222 233677999999999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      +|.......+..++++++++|.+.....+.+..++..+..        +..+|.|+||+|+..+....+.. .+......
T Consensus       137 DFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~--------~L~iIpVlNKIDlp~adpe~V~~-q~~~lF~~  207 (650)
T KOG0462|consen  137 DFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA--------GLAIIPVLNKIDLPSADPERVEN-QLFELFDI  207 (650)
T ss_pred             cccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc--------CCeEEEeeeccCCCCCCHHHHHH-HHHHHhcC
Confidence            9999999999999999999999988777777777777754        67899999999998875433322 23333332


Q ss_pred             cCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          153 RGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       153 ~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      . ..+++.+||++|.|++++++++++++..
T Consensus       208 ~-~~~~i~vSAK~G~~v~~lL~AII~rVPp  236 (650)
T KOG0462|consen  208 P-PAEVIYVSAKTGLNVEELLEAIIRRVPP  236 (650)
T ss_pred             C-ccceEEEEeccCccHHHHHHHHHhhCCC
Confidence            2 3589999999999999999999988743

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.73  E-value=1.6e-16  Score=124.04  Aligned_cols=167  Identities=19%  Similarity=0.191  Sum_probs=122.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +++.-|.++|+..-|||||+..|.+.........+++..+.-..+... ..-.++|.|||||..|..+..+...-+|+++
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvV  229 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVV  229 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEE
Confidence            467789999999999999999999888876666666655555555554 2367999999999999999999999999999


Q ss_pred             EEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH---HHHHHHcCCCcEEEecC
Q 028305           90 LVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA---LEWCAYRGNIPYFETSA  163 (210)
Q Consensus        90 ~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~Sa  163 (210)
                      +|+..+|.   ++.+.+.    ...       ..++|+|+.+||+|.++..+..+..+..   ...-..-|+++++++||
T Consensus       230 LVVAadDGVmpQT~EaIk----hAk-------~A~VpiVvAinKiDkp~a~pekv~~eL~~~gi~~E~~GGdVQvipiSA  298 (683)
T KOG1145|consen  230 LVVAADDGVMPQTLEAIK----HAK-------SANVPIVVAINKIDKPGANPEKVKRELLSQGIVVEDLGGDVQVIPISA  298 (683)
T ss_pred             EEEEccCCccHhHHHHHH----HHH-------hcCCCEEEEEeccCCCCCCHHHHHHHHHHcCccHHHcCCceeEEEeec
Confidence            99999884   3333321    111       1288999999999987654322222211   11112234688999999


Q ss_pred             CCCCChHHHHHHHHHHHHhcccccc
Q 028305          164 KEDCNIDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~~~~~  188 (210)
                      ++|.|++.|-+.+.-.+.-..-+..
T Consensus       299 l~g~nl~~L~eaill~Ae~mdLkA~  323 (683)
T KOG1145|consen  299 LTGENLDLLEEAILLLAEVMDLKAD  323 (683)
T ss_pred             ccCCChHHHHHHHHHHHHHhhcccC
Confidence            9999999999998877655544433

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.73  E-value=6.8e-17  Score=133.88  Aligned_cols=155  Identities=18%  Similarity=0.154  Sum_probs=98.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc---------------------------------ccceeeeEEEEEEE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ---------------------------------YKATIGADFVTKEL   54 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~---------------------------------~~~~~~~~~~~~~~   54 (210)
                      .....++|+++|++++|||||+++|+...-.-.                                 ...+.+++.....+
T Consensus        20 ~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~   99 (632)
T PRK05506         20 ERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYF   99 (632)
T ss_pred             cCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEE
Confidence            456789999999999999999999985332100                                 01122233333333


Q ss_pred             EeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           55 QMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        55 ~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ...  ...+.++||||+.++.......+..+|++++|+|......-..... +..+... .     ..|+++++||+|+.
T Consensus       100 ~~~--~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~-~~~~~~~-~-----~~~iivvvNK~D~~  170 (632)
T PRK05506        100 ATP--KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRH-SFIASLL-G-----IRHVVLAVNKMDLV  170 (632)
T ss_pred             ccC--CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHH-HHHHHHh-C-----CCeEEEEEEecccc
Confidence            333  3568899999998887666667889999999999976432221111 1222211 1     24789999999997


Q ss_pred             CCCC--cccchHHHHHHHHHcC--CCcEEEecCCCCCChHH
Q 028305          135 GGSS--RVVPQKKALEWCAYRG--NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       135 ~~~~--~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~  171 (210)
                      +...  ......++..+....+  ..+++++||++|.|+.+
T Consensus       171 ~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        171 DYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             cchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            4211  1122233444444444  25699999999999984

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.72  E-value=7.1e-17  Score=127.80  Aligned_cols=167  Identities=14%  Similarity=0.103  Sum_probs=108.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC---CCcccceeeeEEEEEEE---------------EeC------------
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF---SQQYKATIGADFVTKEL---------------QMD------------   57 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~---~~~~~~~~~~~~~~~~~---------------~~~------------   57 (210)
                      .++..++|.++|+...|||||+.+|.+...   ..+...+.+++......               ...            
T Consensus        30 ~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (460)
T PTZ00327         30 SRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGC  109 (460)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccc
Confidence            567899999999999999999999985432   22222222222111110               000            


Q ss_pred             ----CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           58 ----DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        58 ----~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                          .....+.++|+||+++|.......+..+|++++|+|++.+. ....... +..+ ....     -.|+|+|+||+|
T Consensus       110 ~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~eh-l~i~-~~lg-----i~~iIVvlNKiD  182 (460)
T PTZ00327        110 GHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEH-LAAV-EIMK-----LKHIIILQNKID  182 (460)
T ss_pred             cccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHH-HHHH-HHcC-----CCcEEEEEeccc
Confidence                00236889999999999888778888999999999998641 2222222 2222 2111     236899999999


Q ss_pred             CCCCCCcccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          133 TDGGSSRVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      +.+........+++..+....  ...+++++||++|.|+++|++.|.+.+.
T Consensus       183 lv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        183 LVKEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             ccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence            975322223334444444321  2478999999999999999999987554

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.72  E-value=2.4e-16  Score=127.07  Aligned_cols=119  Identities=18%  Similarity=0.214  Sum_probs=80.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC----Cc----------------ccceeeeEEEEEEEEeCCeEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS----QQ----------------YKATIGADFVTKELQMDDKLVTLQIWDT   68 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~   68 (210)
                      .....+|+++|++++|||||+++|+...-.    ..                .....++.+......+....+.+++|||
T Consensus         7 ~~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDT   86 (526)
T PRK00741          7 VAKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDT   86 (526)
T ss_pred             hhcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEEC
Confidence            356789999999999999999999731110    00                0001122232333333334578999999


Q ss_pred             CCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           69 AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        69 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      ||+.+|......+++.+|++|+|+|..+..... ...++.....       .++|+++++||+|+..
T Consensus        87 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t~~l~~~~~~-------~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         87 PGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQ-TRKLMEVCRL-------RDTPIFTFINKLDRDG  145 (526)
T ss_pred             CCchhhHHHHHHHHHHCCEEEEEEecCCCCCHH-HHHHHHHHHh-------cCCCEEEEEECCcccc
Confidence            999998887888899999999999998753222 2333333322       1789999999999864

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.72  E-value=3.3e-16  Score=118.79  Aligned_cols=164  Identities=19%  Similarity=0.221  Sum_probs=99.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe---------------------CC-eEEEEEEEeCCCc-
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---------------------DD-KLVTLQIWDTAGQ-   71 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~-~~~~~~i~D~~g~-   71 (210)
                      |+++|.|++|||||+++|++........|..+.+.......+                     ++ ..+.+++||+||. 
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            579999999999999999987654333333333333322221                     22 3467999999996 


Q ss_pred             ---ccccccccc---cccCCcEEEEEEECCC---------------h-hhHHHH----HHH--------HHHHHH-----
Q 028305           72 ---ERFQSLGSA---FYRGADCCVLVYDVNV---------------Q-KTFESL----QNW--------REEFLK-----  112 (210)
Q Consensus        72 ---~~~~~~~~~---~~~~~d~vi~v~d~~~---------------~-~s~~~~----~~~--------~~~l~~-----  112 (210)
                         .+...+...   .++++|++++|+|+..               | +.++.+    ..|        +..+.+     
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~  160 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAE  160 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               333333333   4889999999999973               1 111111    111        000000     


Q ss_pred             ------------------------hc---C-CC-----------------CCCCCCEEEEEecCCCCCCCCcccchHHHH
Q 028305          113 ------------------------QA---D-PG-----------------EHEACPFVLLGNKIDTDGGSSRVVPQKKAL  147 (210)
Q Consensus       113 ------------------------~~---~-~~-----------------~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~  147 (210)
                                              .+   . ..                 .....|+|+|+||.|+...   ....+   
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~---~~~~~---  234 (318)
T cd01899         161 KTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDA---ENNIS---  234 (318)
T ss_pred             CccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccCh---HHHHH---
Confidence                                    00   0 00                 0125799999999997532   11111   


Q ss_pred             HHHHHcCCCcEEEecCCCCCChHHHHH-HHHHHHHhcc
Q 028305          148 EWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKNE  184 (210)
Q Consensus       148 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~-~l~~~~~~~~  184 (210)
                      .+........++++||+.+.++.++.+ .+.+.+....
T Consensus       235 ~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~~  272 (318)
T cd01899         235 KLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPGDS  272 (318)
T ss_pred             HHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCCCC
Confidence            222233346799999999999999997 5888876553

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.

>PRK13351 elongation factor G; Reviewed

Probab=99.71  E-value=1.9e-16  Score=132.59  Aligned_cols=118  Identities=18%  Similarity=0.242  Sum_probs=83.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------Ccc-----cceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------QQY-----KATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------~~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .+...+|+|+|+.|+|||||+++|+...-.             ..+     ....++......+..  ....+.+|||||
T Consensus         5 ~~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~--~~~~i~liDtPG   82 (687)
T PRK13351          5 LMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDW--DNHRINLIDTPG   82 (687)
T ss_pred             cccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEE--CCEEEEEEECCC
Confidence            346789999999999999999999853210             000     011112222222333  347899999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +.++...+..+++.+|++++|+|.++.........| ..+...       ++|+++|+||+|+...
T Consensus        83 ~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~~-------~~p~iiviNK~D~~~~  140 (687)
T PRK13351         83 HIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADRY-------GIPRLIFINKMDRVGA  140 (687)
T ss_pred             cHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHhc-------CCCEEEEEECCCCCCC
Confidence            999988889999999999999999987665554333 333221       6799999999998754

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.70  E-value=6.3e-16  Score=114.64  Aligned_cols=168  Identities=18%  Similarity=0.111  Sum_probs=113.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc----ccccc---ccccC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF----QSLGS---AFYRG   84 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~---~~~~~   84 (210)
                      ..-|.+||.|++|||||++.+......--..|.++..+.-..+.+++ .-.+.+-|.||..+=    ..+-.   ..+..
T Consensus       159 lADVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~-~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIER  237 (369)
T COG0536         159 LADVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDG-GESFVVADIPGLIEGASEGVGLGLRFLRHIER  237 (369)
T ss_pred             ecccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecC-CCcEEEecCcccccccccCCCccHHHHHHHHh
Confidence            44578999999999999999998776544445555555555555532 245888899993321    11222   23556


Q ss_pred             CcEEEEEEECCChh---hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           85 ADCCVLVYDVNVQK---TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        85 ~d~vi~v~d~~~~~---s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      +.++++|+|++..+   ..+.......++..+....  .+.|.++|+||+|+...  .+...+....+.+..+....+.+
T Consensus       238 t~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L--~~K~~ivv~NKiD~~~~--~e~~~~~~~~l~~~~~~~~~~~I  313 (369)
T COG0536         238 TRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKL--AEKPRIVVLNKIDLPLD--EEELEELKKALAEALGWEVFYLI  313 (369)
T ss_pred             hheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHh--ccCceEEEEeccCCCcC--HHHHHHHHHHHHHhcCCCcceee
Confidence            88999999998654   3555555566666553322  26799999999996543  23333334444444342333339


Q ss_pred             cCCCCCChHHHHHHHHHHHHhcc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      |+.++.|++++...+.+.+.+..
T Consensus       314 Sa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         314 SALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             ehhcccCHHHHHHHHHHHHHHhh
Confidence            99999999999999999988775

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.70  E-value=9.8e-17  Score=123.95  Aligned_cols=173  Identities=17%  Similarity=0.107  Sum_probs=127.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc----ccc-----c
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ----SLG-----S   79 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----~~~-----~   79 (210)
                      .+....++|+|.|++|||||++.+.......++.++++...+..++.+  ....++++||||.-+..    ...     .
T Consensus       165 Dp~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dy--kYlrwQViDTPGILD~plEdrN~IEmqsIT  242 (620)
T KOG1490|consen  165 DPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDY--KYLRWQVIDTPGILDRPEEDRNIIEMQIIT  242 (620)
T ss_pred             CCCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhh--heeeeeecCCccccCcchhhhhHHHHHHHH
Confidence            456788999999999999999999988887777777776666665554  44789999999932211    111     1


Q ss_pred             ccccCCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           80 AFYRGADCCVLVYDVNVQK--TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...+--.+|+|+.|++...  |.+.-...+..+.....     +.|+|+|+||+|+...+......+++.+.....++++
T Consensus       243 ALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFa-----NK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~  317 (620)
T KOG1490|consen  243 ALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFA-----NKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVK  317 (620)
T ss_pred             HHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhc-----CCceEEEeecccccCccccCHHHHHHHHHHHhccCce
Confidence            1122235899999999764  44444455666665544     7899999999999776555555555666666667799


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhcccccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~  188 (210)
                      ++.+|+.+.+|+.++....+++++..+-.+.
T Consensus       318 v~~tS~~~eegVm~Vrt~ACe~LLa~RVE~K  348 (620)
T KOG1490|consen  318 VVQTSCVQEEGVMDVRTTACEALLAARVEQK  348 (620)
T ss_pred             EEEecccchhceeeHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998877655433

>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=99.69  E-value=6e-16  Score=101.42  Aligned_cols=106  Identities=24%  Similarity=0.257  Sum_probs=68.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc---------ccccccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF---------QSLGSAFYR   83 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~~~   83 (210)
                      +|+|+|.+|+|||||+|+|++.... ....+..+.......+.+++.  .+.++||||....         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNK--KFILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeecee--eEEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            6999999999999999999975432 222233333344455566664  4579999994321         111233347


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      .+|++++|+|.+++.. +.....+..+.        .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l~--------~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILRELK--------NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHHH--------TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHHh--------cCCCEEEEEcC
Confidence            8999999999877322 22233333442        17799999998

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 ....

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.68  E-value=9.8e-16  Score=116.35  Aligned_cols=158  Identities=15%  Similarity=0.175  Sum_probs=105.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEEe
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQM   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~   56 (210)
                      ..++.++++|+|+..+|||||+.+|+...-.                               .+...+.  ++......+
T Consensus         3 ~~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGv--Ti~~~~~~f   80 (428)
T COG5256           3 SEKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGV--TIDVAHSKF   80 (428)
T ss_pred             CCCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcce--EEEEEEEEe
Confidence            3467899999999999999999998732211                               1122233  333444445


Q ss_pred             CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHH-----HHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           57 DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFE-----SLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~-----~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      ....+.+.++|+||+.+|-......+.+||+.|+|+|+++.+.-.     ...+-...+.+.+.     --.+|+++||+
T Consensus        81 et~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-----i~~lIVavNKM  155 (428)
T COG5256          81 ETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-----IKQLIVAVNKM  155 (428)
T ss_pred             ecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-----CceEEEEEEcc
Confidence            555678999999999999998888899999999999999864211     11122223333332     22589999999


Q ss_pred             CCCCCCC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHHH
Q 028305          132 DTDGGSS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       132 D~~~~~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~  172 (210)
                      |+.+-+.  .+....++..+.+..+    .++|+++|+..|.|+.+-
T Consensus       156 D~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         156 DLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             cccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            9986421  1222233333444444    366999999999998743

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.68  E-value=1.7e-15  Score=116.55  Aligned_cols=166  Identities=16%  Similarity=0.144  Sum_probs=121.6

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC---------------CcccceeeeEEE--EEEEE-eCCeEEEEEEEeCC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---------------QQYKATIGADFV--TKELQ-MDDKLVTLQIWDTA   69 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~~~~--~~~~~-~~~~~~~~~i~D~~   69 (210)
                      +.....+..++-+-.-|||||..||+...-.               -+...++++.-.  ...+. -++..+.++++|||
T Consensus         5 ~~~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTP   84 (603)
T COG0481           5 PQKNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTP   84 (603)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCC
Confidence            3455678889999999999999998733221               112223333222  22222 25678999999999


Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHH
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEW  149 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~  149 (210)
                      ||-+|.....+.+..|.++++++|++..-....+.+.|..+..        +.-++-|+||+|++..++..+ .+++...
T Consensus        85 GHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~--------~LeIiPViNKIDLP~Adperv-k~eIe~~  155 (603)
T COG0481          85 GHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN--------NLEIIPVLNKIDLPAADPERV-KQEIEDI  155 (603)
T ss_pred             CccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc--------CcEEEEeeecccCCCCCHHHH-HHHHHHH
Confidence            9999999999999999999999999998777888888888764        557899999999987643222 2233322


Q ss_pred             HHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          150 CAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       150 ~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      .- ......+.+||++|.|++++++.+++++..=
T Consensus       156 iG-id~~dav~~SAKtG~gI~~iLe~Iv~~iP~P  188 (603)
T COG0481         156 IG-IDASDAVLVSAKTGIGIEDVLEAIVEKIPPP  188 (603)
T ss_pred             hC-CCcchheeEecccCCCHHHHHHHHHhhCCCC
Confidence            21 2235689999999999999999999987643

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=5.3e-16  Score=112.04  Aligned_cols=168  Identities=14%  Similarity=0.221  Sum_probs=112.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEE-EeCCeEEEEEEEeCCCccc-------cccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKEL-QMDDKLVTLQIWDTAGQER-------FQSLGS   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~-------~~~~~~   79 (210)
                      ....+++|+++|..|+|||||+|+|+.+...+...-+.+.+...... .+++  -.+.+||+||-++       +.....
T Consensus        35 ~~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~  112 (296)
T COG3596          35 TEKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYR  112 (296)
T ss_pred             cccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHH
Confidence            35689999999999999999999999665543332222222322222 2333  3499999999443       666677


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC-----C--------cccchH--
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS-----S--------RVVPQK--  144 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~-----~--------~~~~~~--  144 (210)
                      .++...|.++++.+..++.--.. ..++..+.....     +.++++++|.+|.....     .        ++...+  
T Consensus       113 d~l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~~-----~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~  186 (296)
T COG3596         113 DYLPKLDLVLWLIKADDRALGTD-EDFLRDVIILGL-----DKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKA  186 (296)
T ss_pred             HHhhhccEEEEeccCCCccccCC-HHHHHHHHHhcc-----CceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHH
Confidence            88889999999999998754333 334444443322     46999999999985431     0        111222  


Q ss_pred             -HHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          145 -KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       145 -~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                       .+.++++.  -.+++..+.+.+-|++++...++..+.....
T Consensus       187 ~~~~~~~q~--V~pV~~~~~r~~wgl~~l~~ali~~lp~e~r  226 (296)
T COG3596         187 EALGRLFQE--VKPVVAVSGRLPWGLKELVRALITALPVEAR  226 (296)
T ss_pred             HHHHHHHhh--cCCeEEeccccCccHHHHHHHHHHhCccccc
Confidence             22333333  2468888889999999999999998875544

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.66  E-value=5.9e-15  Score=115.19  Aligned_cols=83  Identities=22%  Similarity=0.326  Sum_probs=57.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe---------------------C-CeEEEEEEEeCCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---------------------D-DKLVTLQIWDTAG   70 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------------~-~~~~~~~i~D~~g   70 (210)
                      ++|+++|.||+|||||+|+|++........+..+++.......+                     + .....+++||+||
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            68999999999999999999987665333344444444333221                     1 2336799999999


Q ss_pred             cc----ccccccccc---ccCCcEEEEEEECC
Q 028305           71 QE----RFQSLGSAF---YRGADCCVLVYDVN   95 (210)
Q Consensus        71 ~~----~~~~~~~~~---~~~~d~vi~v~d~~   95 (210)
                      ..    ....+...+   ++.+|++++|+|+.
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    223333344   78999999999997

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.65  E-value=1.3e-15  Score=117.61  Aligned_cols=172  Identities=19%  Similarity=0.135  Sum_probs=113.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-ccccc--------c
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-FQSLG--------S   79 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~--------~   79 (210)
                      +..++|+++|+||+|||||+|.|...... ..+.++++.|-....+.++|  +++.+.||+|-.+ -....        .
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G--~~v~L~DTAGiRe~~~~~iE~~gI~rA~  343 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG--VPVRLSDTAGIREESNDGIEALGIERAR  343 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC--eEEEEEeccccccccCChhHHHhHHHHH
Confidence            45699999999999999999999977654 56778888888888888877  6688889999544 11111        2


Q ss_pred             ccccCCcEEEEEEECC--ChhhHHHHHHHHHHHHHhc--CCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH--Hc
Q 028305           80 AFYRGADCCVLVYDVN--VQKTFESLQNWREEFLKQA--DPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA--YR  153 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~--~~~s~~~~~~~~~~l~~~~--~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~--~~  153 (210)
                      .-+..+|++++|+|+.  +-.+-..+...+.......  ..+...+.|++++.||.|+...-.  ........+..  -.
T Consensus       344 k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~--~~~~~~~~~~~~~~~  421 (531)
T KOG1191|consen  344 KRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIP--EMTKIPVVYPSAEGR  421 (531)
T ss_pred             HHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccc--cccCCceeccccccC
Confidence            2357899999999993  3333233333333332211  111113469999999999976410  00110111111  11


Q ss_pred             CCCc-EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          154 GNIP-YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       154 ~~~~-~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +..+ ..++|+.+++|++.+.+.+.........
T Consensus       422 ~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  422 SVFPIVVEVSCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             cccceEEEeeechhhhHHHHHHHHHHHHHHhhc
Confidence            2234 4559999999999999999988877655

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.65  E-value=2.9e-15  Score=125.28  Aligned_cols=147  Identities=15%  Similarity=0.095  Sum_probs=94.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .+...+|+++|++++|||||+++|+...-.                  .+...+++++.....+...+  ..+.+|||||
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~liDTPG   84 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINIIDTPG   84 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEEEECCC
Confidence            445779999999999999999999732211                  01122334444444444444  6799999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      +.++.......++.+|++++|+|..+....... .++..+...       ++|+++++||+|+.... .....+.+....
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~-------~~p~ivviNK~D~~~~~-~~~~~~~i~~~l  155 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANRY-------EVPRIAFVNKMDKTGAN-FLRVVNQIKQRL  155 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHHc-------CCCEEEEEECCCCCCCC-HHHHHHHHHHHh
Confidence            998887888889999999999999876444332 222333221       67999999999997642 222223333222


Q ss_pred             HHcCCCcEEEecCCCC
Q 028305          151 AYRGNIPYFETSAKED  166 (210)
Q Consensus       151 ~~~~~~~~~~~Sa~~~  166 (210)
                      ........+++|+..+
T Consensus       156 ~~~~~~~~ipis~~~~  171 (689)
T TIGR00484       156 GANAVPIQLPIGAEDN  171 (689)
T ss_pred             CCCceeEEeccccCCC
Confidence            2111122566666555

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.

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.65  E-value=4.6e-16  Score=103.48  Aligned_cols=158  Identities=20%  Similarity=0.319  Sum_probs=112.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.-|++++|-.|+|||||++.|.++... +..||.-  ++.....+.  +.+++.+|.+|+..-+..+..++..+|+++
T Consensus        18 kK~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlH--PTSE~l~Ig--~m~ftt~DLGGH~qArr~wkdyf~~v~~iv   92 (193)
T KOG0077|consen   18 KKFGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLH--PTSEELSIG--GMTFTTFDLGGHLQARRVWKDYFPQVDAIV   92 (193)
T ss_pred             ccCceEEEEeecCCchhhHHHHHcccccc-ccCCCcC--CChHHheec--CceEEEEccccHHHHHHHHHHHHhhhceeE
Confidence            34568999999999999999999877655 3333332  222233343  378999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH---HHcC------------
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC---AYRG------------  154 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~---~~~~------------  154 (210)
                      +.+|+.+.+.+.+...-+..+.....   ..++|+++.+||+|...+.    .+++.+-..   +..+            
T Consensus        93 ~lvda~d~er~~es~~eld~ll~~e~---la~vp~lilgnKId~p~a~----se~~l~~~l~l~~~t~~~~~v~~~~~~~  165 (193)
T KOG0077|consen   93 YLVDAYDQERFAESKKELDALLSDES---LATVPFLILGNKIDIPYAA----SEDELRFHLGLSNFTTGKGKVNLTDSNV  165 (193)
T ss_pred             eeeehhhHHHhHHHHHHHHHHHhHHH---HhcCcceeecccccCCCcc----cHHHHHHHHHHHHHhcccccccccCCCC
Confidence            99999999988887665555543321   1278999999999998653    222222111   1111            


Q ss_pred             -CCcEEEecCCCCCChHHHHHHHHHH
Q 028305          155 -NIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       155 -~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                       .+.++.+|...+.+.-+.|.|+.+.
T Consensus       166 rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  166 RPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             CeEEEEEEEEEccCccceeeeehhhh
Confidence             2347788888888888888887654

>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=99.64  E-value=7e-16  Score=106.94  Aligned_cols=120  Identities=23%  Similarity=0.271  Sum_probs=72.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCccccccccccc---ccCCcE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAF---YRGADC   87 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~---~~~~d~   87 (210)
                      .-.|+++|+.|||||+|..+|..+......... .  ... ...+ ......+.++|+|||.+.+......   ...+.+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e--~n~-~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~   78 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-E--NNI-AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKG   78 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-S--EEE-ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-c--CCc-eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCE
Confidence            346899999999999999999988554322111 1  111 1111 2233468899999999987755544   788999


Q ss_pred             EEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           88 CVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        88 vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +|||+|.+. +..+.....++..+....... ...+|++|+.||.|+..+
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~-~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQ-KNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCC-TT--EEEEEEE-TTSTT-
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhc-cCCCCEEEEEeCcccccc
Confidence            999999974 344555554444444332211 237899999999999765

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=99.64  E-value=4.1e-15  Score=120.07  Aligned_cols=120  Identities=18%  Similarity=0.224  Sum_probs=81.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc--CC--Cc----------------ccceeeeEEEEEEEEeCCeEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK--FS--QQ----------------YKATIGADFVTKELQMDDKLVTLQIWDT   68 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~--~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~   68 (210)
                      .....+|+++|++++|||||+++|+...  ..  ..                .....++.+......++.....+.+|||
T Consensus         8 ~~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDT   87 (527)
T TIGR00503         8 VDKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDT   87 (527)
T ss_pred             hccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEEC
Confidence            4567899999999999999999986311  10  00                0011123333333444445688999999


Q ss_pred             CCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           69 AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        69 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ||+.++.......++.+|++|+|+|..+... .....++.....       .++|+++++||+|+...
T Consensus        88 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~-------~~~PiivviNKiD~~~~  147 (527)
T TIGR00503        88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL-------RDTPIFTFMNKLDRDIR  147 (527)
T ss_pred             CChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh-------cCCCEEEEEECccccCC
Confidence            9999888877788899999999999987422 122333333322       16799999999998653

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.64  E-value=2.2e-14  Score=102.64  Aligned_cols=166  Identities=15%  Similarity=0.110  Sum_probs=99.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcc--cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-------cc----c
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQY--KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-------LG----S   79 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~----~   79 (210)
                      ++|+++|.+|+|||||+|++++.......  .+..+...........+  ..+.++||||..+...       ..    .
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            47999999999999999999977543222  22333333333344444  4689999999544321       11    1


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCccc----chHHHHHHHHHcCC
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVV----PQKKALEWCAYRGN  155 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~----~~~~~~~~~~~~~~  155 (210)
                      .....+|++++|+++.+. +.+. ...+..+........  -.++++|.|++|.......+.    .....+.+.+..+ 
T Consensus        79 ~~~~g~~~illVi~~~~~-t~~d-~~~l~~l~~~fg~~~--~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~-  153 (196)
T cd01852          79 LSAPGPHAFLLVVPLGRF-TEEE-EQAVETLQELFGEKV--LDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCG-  153 (196)
T ss_pred             hcCCCCEEEEEEEECCCc-CHHH-HHHHHHHHHHhChHh--HhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhC-
Confidence            123568999999998862 2221 233334433322110  237899999999765321111    1244555555544 


Q ss_pred             CcEEEec-----CCCCCChHHHHHHHHHHHHhccc
Q 028305          156 IPYFETS-----AKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       156 ~~~~~~S-----a~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ..++..+     +..+.++.++++.+.+.+..+..
T Consensus       154 ~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~~~  188 (196)
T cd01852         154 GRYVAFNNKAKGEEQEQQVKELLAKVESMVKENGG  188 (196)
T ss_pred             CeEEEEeCCCCcchhHHHHHHHHHHHHHHHHhcCC
Confidence            3343333     45688999999999888877433

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).

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.63  E-value=1.5e-14  Score=106.58  Aligned_cols=171  Identities=22%  Similarity=0.281  Sum_probs=125.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEE--eCCeEEEEEEEeCCCcccccccccccccCC---
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQ--MDDKLVTLQIWDTAGQERFQSLGSAFYRGA---   85 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~---   85 (210)
                      .-=+|+|+|..++|||||+.+|-+..   .+.++.+..+.+..++  .++...++.+|-..|..-+..+....+...   
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~a  127 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLA  127 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCcc
Confidence            45579999999999999999998655   3344444445444443  344457889999988776666665554432   


Q ss_pred             -cEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCC-------------------------------------------
Q 028305           86 -DCCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHE-------------------------------------------  120 (210)
Q Consensus        86 -d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~-------------------------------------------  120 (210)
                       -.||++.|+++| ..++.+.+|...+..+.......                                           
T Consensus       128 etlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~  207 (473)
T KOG3905|consen  128 ETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEH  207 (473)
T ss_pred             ceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccc
Confidence             388999999999 45667778877763332222221                                           


Q ss_pred             --------------CCCEEEEEecCCCCCC---------CCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHH
Q 028305          121 --------------ACPFVLLGNKIDTDGG---------SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus       121 --------------~~p~ilv~~K~D~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  177 (210)
                                    ++|+++|.+|+|...-         +.+.....-++.|+.+++ ...+.+|+++..|++-++..|.
T Consensus       208 ~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~G-aaLiyTSvKE~KNidllyKYiv  286 (473)
T KOG3905|consen  208 VLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYG-AALIYTSVKETKNIDLLYKYIV  286 (473)
T ss_pred             cccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcC-ceeEEeecccccchHHHHHHHH
Confidence                          6899999999998321         224567778899999999 8999999999999999999999


Q ss_pred             HHHHhccc
Q 028305          178 EIALKNEH  185 (210)
Q Consensus       178 ~~~~~~~~  185 (210)
                      ++.+-..=
T Consensus       287 hr~yG~~f  294 (473)
T KOG3905|consen  287 HRSYGFPF  294 (473)
T ss_pred             HHhcCccc
Confidence            99876644

>PRK12739 elongation factor G; Reviewed

Probab=99.61  E-value=9.9e-15  Score=122.08  Aligned_cols=118  Identities=19%  Similarity=0.162  Sum_probs=83.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .....+|+++|++++|||||+++|+...-.                  .+...+++++.....+..++  .++.++||||
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG   82 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPG   82 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCC
Confidence            346789999999999999999999742110                  01123344444444444544  6789999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +.++.......++.+|++++|+|.......... ..+..+...       ++|+++++||+|+...
T Consensus        83 ~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~~-------~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         83 HVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADKY-------GVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHHc-------CCCEEEEEECCCCCCC
Confidence            988888888889999999999999875433322 222333221       6799999999999864

>PRK09866 hypothetical protein; Provisional

Probab=99.60  E-value=5.4e-14  Score=113.11  Aligned_cols=109  Identities=19%  Similarity=0.189  Sum_probs=70.8

Q ss_pred             EEEEEeCCCccc-----ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           62 TLQIWDTAGQER-----FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        62 ~~~i~D~~g~~~-----~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      .+.++||||...     +.......+..+|++++|+|.....+... ......+.+...     +.|+++|+||+|+...
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~K-----~~PVILVVNKIDl~dr  304 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVGQ-----SVPLYVLVNKFDQQDR  304 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcCC-----CCCEEEEEEcccCCCc
Confidence            578999999543     22234456889999999999987433332 122333332211     2599999999998532


Q ss_pred             CCcccchHHHHHHHH----H--cCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          137 SSRVVPQKKALEWCA----Y--RGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       137 ~~~~~~~~~~~~~~~----~--~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      .  ....+.+..+..    .  .....++++||+.|.|++++++.|..
T Consensus       305 e--eddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        305 N--SDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             c--cchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            1  111333333322    1  12346999999999999999998887

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.59  E-value=5.2e-15  Score=94.00  Aligned_cols=138  Identities=24%  Similarity=0.285  Sum_probs=98.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----cccccccccccccCCcEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----QERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----~~~~~~~~~~~~~~~d~vi   89 (210)
                      |++++|..|+|||||.++|.+....  +..+..+.+       ...    -.+||||    +..+..........+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~l--ykKTQAve~-------~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTL--YKKTQAVEF-------NDK----GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhh--hcccceeec-------cCc----cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            7899999999999999999876543  222222222       111    1459999    3344444455567899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|-.++++.+--.. .+....          ..|+|=|++|.|+.+.    ...+..+.+....|.-++|++|+.++.|+
T Consensus        70 ~v~~and~~s~f~p-~f~~~~----------~k~vIgvVTK~DLaed----~dI~~~~~~L~eaGa~~IF~~s~~d~~gv  134 (148)
T COG4917          70 YVHAANDPESRFPP-GFLDIG----------VKKVIGVVTKADLAED----ADISLVKRWLREAGAEPIFETSAVDNQGV  134 (148)
T ss_pred             eeecccCccccCCc-cccccc----------ccceEEEEecccccch----HhHHHHHHHHHHcCCcceEEEeccCcccH
Confidence            99999987542211 111111          4579999999999853    45677788888889899999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          170 DEAFLCVAEI  179 (210)
Q Consensus       170 ~~~~~~l~~~  179 (210)
                      +++++.|...
T Consensus       135 ~~l~~~L~~~  144 (148)
T COG4917         135 EELVDYLASL  144 (148)
T ss_pred             HHHHHHHHhh
Confidence            9999988653

>PRK12740 elongation factor G; Reviewed

Probab=99.59  E-value=3.4e-14  Score=118.92  Aligned_cols=109  Identities=21%  Similarity=0.263  Sum_probs=75.3

Q ss_pred             EcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccc
Q 028305           18 LGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGS   79 (210)
Q Consensus        18 ~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   79 (210)
                      +|++++|||||+++|+...-.                  .+...+.++......+...  .+.+.+|||||+.++...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~--~~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWK--GHKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEEC--CEEEEEEECCCcHHHHHHHH
Confidence            699999999999999633211                  0011223333333344443  47899999999988877788


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ..+..+|++++|+|.+..........| ..+...       ++|+++|+||+|+...
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~~-------~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVW-RQAEKY-------GVPRIIFVNKMDRAGA  127 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHHc-------CCCEEEEEECCCCCCC
Confidence            889999999999999886655443333 233221       6799999999998643

>PRK00007 elongation factor G; Reviewed

Probab=99.58  E-value=1.8e-14  Score=120.48  Aligned_cols=147  Identities=17%  Similarity=0.110  Sum_probs=93.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC--C----------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF--S----------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .+...+|+++|.+++|||||+++|+...-  .                .+...+.+++.....+...+  ..+.++||||
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG   84 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPG   84 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCC
Confidence            45678999999999999999999973111  0                01223344444444444444  6789999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      +.++.......++.+|++++|+|............ +..+...       ++|.++++||+|+..... ....++++...
T Consensus        85 ~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~-~~~~~~~-------~~p~iv~vNK~D~~~~~~-~~~~~~i~~~l  155 (693)
T PRK00007         85 HVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETV-WRQADKY-------KVPRIAFVNKMDRTGADF-YRVVEQIKDRL  155 (693)
T ss_pred             cHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHH-HHHHHHc-------CCCEEEEEECCCCCCCCH-HHHHHHHHHHh
Confidence            98887777778889999999999876543333222 2233222       679999999999986431 12222332222


Q ss_pred             HHcCCCcEEEecCCCC
Q 028305          151 AYRGNIPYFETSAKED  166 (210)
Q Consensus       151 ~~~~~~~~~~~Sa~~~  166 (210)
                      ........+++|+..+
T Consensus       156 ~~~~~~~~ipisa~~~  171 (693)
T PRK00007        156 GANPVPIQLPIGAEDD  171 (693)
T ss_pred             CCCeeeEEecCccCCc
Confidence            2211234566777665

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.58  E-value=5.4e-14  Score=120.10  Aligned_cols=148  Identities=27%  Similarity=0.288  Sum_probs=98.9

Q ss_pred             cHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeE----------------EEEEEEeCCCcccccccccccccCCcE
Q 028305           24 GKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL----------------VTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus        24 GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +||||+.++.+.........+++....-..+..+...                -.+.+|||||++.+..+....+..+|+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aDi  552 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLADL  552 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCCE
Confidence            4999999999888776666666555544444333110                128999999999998887777888999


Q ss_pred             EEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC------c--------ccchHHHH---
Q 028305           88 CVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS------R--------VVPQKKAL---  147 (210)
Q Consensus        88 vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~------~--------~~~~~~~~---  147 (210)
                      +++|+|+++   +.+++.+.    .+...       ++|+++|+||+|+.....      +        +....+..   
T Consensus       553 vlLVVDa~~Gi~~qT~e~I~----~lk~~-------~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l  621 (1049)
T PRK14845        553 AVLVVDINEGFKPQTIEAIN----ILRQY-------KTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKL  621 (1049)
T ss_pred             EEEEEECcccCCHhHHHHHH----HHHHc-------CCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHH
Confidence            999999987   34444332    22211       679999999999964210      0        00011110   


Q ss_pred             -H----HH-------------HHcCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          148 -E----WC-------------AYRGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       148 -~----~~-------------~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                       .    +.             ...+.++++++||++|+|+++++..|......
T Consensus       622 ~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~~  674 (1049)
T PRK14845        622 YELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQK  674 (1049)
T ss_pred             HHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhHH
Confidence             0    11             11235789999999999999999988765543

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.57  E-value=7.7e-14  Score=103.99  Aligned_cols=154  Identities=20%  Similarity=0.215  Sum_probs=110.0

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC---------------------------------CcccceeeeEEEEEEE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---------------------------------QQYKATIGADFVTKEL   54 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---------------------------------~~~~~~~~~~~~~~~~   54 (210)
                      .....++++-+|...-||||||.||+.+.-.                                 .+...+++++..+..+
T Consensus         2 ~~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyF   81 (431)
T COG2895           2 QHKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYF   81 (431)
T ss_pred             CcccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeec
Confidence            3467899999999999999999998743322                                 2234456667666666


Q ss_pred             EeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           55 QMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        55 ~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ..+.  .++++-|||||+.|...+-.....||++|+++|....- .+. .+-...+...+.     -..+++.+||+||.
T Consensus        82 sT~K--RkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv-l~Q-TrRHs~I~sLLG-----IrhvvvAVNKmDLv  152 (431)
T COG2895          82 STEK--RKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV-LEQ-TRRHSFIASLLG-----IRHVVVAVNKMDLV  152 (431)
T ss_pred             cccc--ceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh-HHH-hHHHHHHHHHhC-----CcEEEEEEeeeccc
Confidence            6544  56999999999999888888888999999999996432 111 111222222221     22588999999998


Q ss_pred             CCCC--cccchHHHHHHHHHcCC--CcEEEecCCCCCChH
Q 028305          135 GGSS--RVVPQKKALEWCAYRGN--IPYFETSAKEDCNID  170 (210)
Q Consensus       135 ~~~~--~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~  170 (210)
                      +...  +....++...|+...+.  ..++++||..|+|+-
T Consensus       153 dy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         153 DYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             ccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            7642  34555666778888773  459999999999986

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.57  E-value=1.7e-13  Score=108.05  Aligned_cols=168  Identities=20%  Similarity=0.321  Sum_probs=122.6

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG   84 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   84 (210)
                      ........+++.|+|+.++|||.|+++|+++.+...+..+....+....+...+....+.+.|.+-. ...-+...- ..
T Consensus       418 ~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~  495 (625)
T KOG1707|consen  418 KKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AA  495 (625)
T ss_pred             cccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ce
Confidence            3445568999999999999999999999998888766566666666666666677777888877653 222222222 67


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|+++++||.+++.+|+.+...+..-...      ...|+++|++|+|+.+...+ ..... .+++++.+.-+.+.+|.+
T Consensus       496 cDv~~~~YDsS~p~sf~~~a~v~~~~~~~------~~~Pc~~va~K~dlDe~~Q~-~~iqp-de~~~~~~i~~P~~~S~~  567 (625)
T KOG1707|consen  496 CDVACLVYDSSNPRSFEYLAEVYNKYFDL------YKIPCLMVATKADLDEVPQR-YSIQP-DEFCRQLGLPPPIHISSK  567 (625)
T ss_pred             eeeEEEecccCCchHHHHHHHHHHHhhhc------cCCceEEEeeccccchhhhc-cCCCh-HHHHHhcCCCCCeeeccC
Confidence            99999999999999999876654443222      27899999999999875322 22223 788888887777888887


Q ss_pred             CCCChHHHHHHHHHHHHhc
Q 028305          165 EDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~  183 (210)
                      + .+=.++|..|+.++.-=
T Consensus       568 ~-~~s~~lf~kL~~~A~~P  585 (625)
T KOG1707|consen  568 T-LSSNELFIKLATMAQYP  585 (625)
T ss_pred             C-CCCchHHHHHHHhhhCC
Confidence            5 22289999999887543

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.57  E-value=1.9e-13  Score=108.32  Aligned_cols=174  Identities=22%  Similarity=0.301  Sum_probs=121.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC--CeEEEEEEEeCCCcccccccccccccCC--
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD--DKLVTLQIWDTAGQERFQSLGSAFYRGA--   85 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~g~~~~~~~~~~~~~~~--   85 (210)
                      ...-.|+|+|..++|||||+.+|.+..   .+.++.+.+|.+..+.-+  .....+.+|-..|...+..+....+...  
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l   99 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENL   99 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccc
Confidence            455789999999999999999987543   334555555555544322  2345789999988666666665555432  


Q ss_pred             --cEEEEEEECCChhhH-HHHHHHHHHHHHhcCCC---------------------------------------------
Q 028305           86 --DCCVLVYDVNVQKTF-ESLQNWREEFLKQADPG---------------------------------------------  117 (210)
Q Consensus        86 --d~vi~v~d~~~~~s~-~~~~~~~~~l~~~~~~~---------------------------------------------  117 (210)
                        -.||+|.|.+.|..+ +.+..|...+..+....                                             
T Consensus       100 ~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~  179 (472)
T PF05783_consen  100 PNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDD  179 (472)
T ss_pred             cceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccc
Confidence              388999999998554 45566655551111000                                             


Q ss_pred             -------------CCCCCCEEEEEecCCCCCC---------CCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHH
Q 028305          118 -------------EHEACPFVLLGNKIDTDGG---------SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLC  175 (210)
Q Consensus       118 -------------~~~~~p~ilv~~K~D~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  175 (210)
                                   ...++|++||.+|+|....         +..+....-++.++..+| ..++.+|.+...+++-++..
T Consensus       180 ~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yG-AsL~yts~~~~~n~~~L~~y  258 (472)
T PF05783_consen  180 ESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYG-ASLIYTSVKEEKNLDLLYKY  258 (472)
T ss_pred             ccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcC-CeEEEeeccccccHHHHHHH
Confidence                         0015899999999997321         123456667888999998 88999999999999999999


Q ss_pred             HHHHHHhccccc
Q 028305          176 VAEIALKNEHKD  187 (210)
Q Consensus       176 l~~~~~~~~~~~  187 (210)
                      |..+++...-+.
T Consensus       259 i~h~l~~~~f~~  270 (472)
T PF05783_consen  259 ILHRLYGFPFKT  270 (472)
T ss_pred             HHHHhccCCCCC
Confidence            999988776543

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 [].

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.56  E-value=2.8e-14  Score=119.77  Aligned_cols=118  Identities=20%  Similarity=0.183  Sum_probs=80.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC---------------cCCCc---ccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN---------------KFSQQ---YKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~---------------~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ....+|+++|+.++|||||+++|+..               .+...   +..+............++..+.+.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            45789999999999999999999742               11110   1112222222222335566788999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .++.......++.+|++++|+|............| ..+...       ++|.++++||+|...
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~~~-------~~p~ivviNKiD~~~  152 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQALKE-------NVKPVLFINKVDRLI  152 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHHHc-------CCCEEEEEEChhccc
Confidence            99888888889999999999999874322222222 222211       668899999999864

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.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.51  E-value=3.9e-13  Score=93.55  Aligned_cols=162  Identities=19%  Similarity=0.226  Sum_probs=104.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccccc---CCcE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYR---GADC   87 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~---~~d~   87 (210)
                      ..-.|+++|+.+||||+|.-.|+.+......   +.+......+.+.+..  +.++|.|||.+.+.....++.   .+-+
T Consensus        37 ~~~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv---tSiepn~a~~r~gs~~--~~LVD~PGH~rlR~kl~e~~~~~~~aka  111 (238)
T KOG0090|consen   37 KQNAVLLVGLSDSGKTSLFTQLITGSHRGTV---TSIEPNEATYRLGSEN--VTLVDLPGHSRLRRKLLEYLKHNYSAKA  111 (238)
T ss_pred             cCCcEEEEecCCCCceeeeeehhcCCccCee---eeeccceeeEeecCcc--eEEEeCCCcHHHHHHHHHHcccccccee
Confidence            3457999999999999999999987544322   2233334444444433  788899999998877777766   6889


Q ss_pred             EEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----cchHHHHHH-------------
Q 028305           88 CVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----VPQKKALEW-------------  149 (210)
Q Consensus        88 vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----~~~~~~~~~-------------  149 (210)
                      +++|+|..- +........++..+...... ....+|++++.||.|+.-+...+    ..+.|+..+             
T Consensus       112 iVFVVDSa~f~k~vrdvaefLydil~~~~~-~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~e  190 (238)
T KOG0090|consen  112 IVFVVDSATFLKNVRDVAEFLYDILLDSRV-KKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDE  190 (238)
T ss_pred             EEEEEeccccchhhHHHHHHHHHHHHhhcc-ccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccc
Confidence            999999754 23344444444444333211 22278999999999986543211    111111111             


Q ss_pred             -----------------HHHc-CCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          150 -----------------CAYR-GNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       150 -----------------~~~~-~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                                       .+-. ..+.+.++|++++ +++++-+|+.+.
T Consensus       191 d~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  191 DIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             cccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                             1111 1355888999988 899999998875

>PRK13768 GTPase; Provisional

Probab=99.51  E-value=2.2e-13  Score=100.80  Aligned_cols=116  Identities=20%  Similarity=0.135  Sum_probs=70.7

Q ss_pred             EEEEEeCCCccccc---cccccc---ccC--CcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           62 TLQIWDTAGQERFQ---SLGSAF---YRG--ADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        62 ~~~i~D~~g~~~~~---~~~~~~---~~~--~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      .+.+||+||+.+..   .....+   +..  ++++++++|.......... ..++..+......    ++|+++|+||+|
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~----~~~~i~v~nK~D  173 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRL----GLPQIPVLNKAD  173 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHc----CCCEEEEEEhHh
Confidence            58999999976632   222222   222  7999999999764332222 2222221111111    679999999999


Q ss_pred             CCCCCCcccchHHHH------------------------HHHHHcC-CCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          133 TDGGSSRVVPQKKAL------------------------EWCAYRG-NIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~------------------------~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      +.+............                        ...+..+ ..+++++|++++.|+++++++|.+.+.
T Consensus       174 ~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        174 LLSEEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             hcCchhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence            976532222111111                        1122223 357999999999999999999988764

>PTZ00258 GTP-binding protein; Provisional

Probab=99.51  E-value=4.5e-13  Score=103.73  Aligned_cols=86  Identities=22%  Similarity=0.186  Sum_probs=61.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCccc-
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQER-   73 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~-   73 (210)
                      ...++|+++|.||+|||||+|+|.+........|.++.+.....+.+.+.               ..++.++|+||... 
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~g   98 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKG   98 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcC
Confidence            56789999999999999999999877665545566666666666554432               23589999999432 


Q ss_pred             ------ccccccccccCCcEEEEEEECC
Q 028305           74 ------FQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        74 ------~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                            ........++.+|++++|+|..
T Consensus        99 a~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         99 ASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                  1112233467899999999973

>TIGR00101 ureG urease accessory protein UreG

Probab=99.50  E-value=1e-12  Score=93.76  Aligned_cols=103  Identities=20%  Similarity=0.232  Sum_probs=62.1

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC--CC
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG--SS  138 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~--~~  138 (210)
                      ....++++.|..-......   .-+|.+|.|+|+.+.++...  .....+          ...-++++||+|+.+.  ..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~---~l~~~~i~vvD~~~~~~~~~--~~~~qi----------~~ad~~~~~k~d~~~~~~~~  156 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP---ELADLTIFVIDVAAGDKIPR--KGGPGI----------TRSDLLVINKIDLAPMVGAD  156 (199)
T ss_pred             CCEEEEECCCCCcccccch---hhhCcEEEEEEcchhhhhhh--hhHhHh----------hhccEEEEEhhhcccccccc
Confidence            3456667777321111111   12578999999987554221  111111          2234899999999743  11


Q ss_pred             cccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .....++++.+   .+..+++++|+++|.|++++|+++.+.+.
T Consensus       157 ~~~~~~~~~~~---~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       157 LGVMERDAKKM---RGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHHHHHh---CCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            12222333333   44588999999999999999999987653

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.50  E-value=1.2e-13  Score=99.69  Aligned_cols=172  Identities=19%  Similarity=0.178  Sum_probs=98.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccce-eeeEEE------EEEEEe------------------------
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT-IGADFV------TKELQM------------------------   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~------~~~~~~------------------------   56 (210)
                      ..+.+.-|+|+|-.|||||||++||..........|- +..++.      ...+.+                        
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~Ts   94 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTS   94 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhh
Confidence            3456888999999999999999999744332211110 000000      000000                        


Q ss_pred             -----------------CCeEEEEEEEeCCCcccccc------cccccccC--CcEEEEEEECCC---hhhHHHHHHHHH
Q 028305           57 -----------------DDKLVTLQIWDTAGQERFQS------LGSAFYRG--ADCCVLVYDVNV---QKTFESLQNWRE  108 (210)
Q Consensus        57 -----------------~~~~~~~~i~D~~g~~~~~~------~~~~~~~~--~d~vi~v~d~~~---~~s~~~~~~~~~  108 (210)
                                       ......+.++|||||.+...      +....+..  .-+++|++|...   |.+|.  .+.+.
T Consensus        95 LNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFM--SNMlY  172 (366)
T KOG1532|consen   95 LNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFM--SNMLY  172 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHH--HHHHH
Confidence                             11124688999999765221      11112222  347777777643   33333  22222


Q ss_pred             HHHHhcCCCCCCCCCEEEEEecCCCCCCCC-------cccchHHH----------------HHHHHHcCCCcEEEecCCC
Q 028305          109 EFLKQADPGEHEACPFVLLGNKIDTDGGSS-------RVVPQKKA----------------LEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus       109 ~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-------~~~~~~~~----------------~~~~~~~~~~~~~~~Sa~~  165 (210)
                      ...-....    ..|+|+|.||+|+.....       .+...+.+                ..+-..+..+..+-+|+.+
T Consensus       173 AcSilykt----klp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~t  248 (366)
T KOG1532|consen  173 ACSILYKT----KLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVT  248 (366)
T ss_pred             HHHHHHhc----cCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEeccc
Confidence            22222222    789999999999976531       11111111                1222334457799999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|.+++|..+.+.+-++..
T Consensus       249 G~G~ddf~~av~~~vdEy~~  268 (366)
T KOG1532|consen  249 GEGFDDFFTAVDESVDEYEE  268 (366)
T ss_pred             CCcHHHHHHHHHHHHHHHHH
Confidence            99999999999988876655

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.49  E-value=4.8e-13  Score=103.10  Aligned_cols=161  Identities=17%  Similarity=0.217  Sum_probs=108.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc--CCC------------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK--FSQ------------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS   76 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   76 (210)
                      ...+|+++-+..-|||||+..|+...  |..            ......++.+..+...+....+.++++|||||.+|..
T Consensus         4 ~iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGG   83 (603)
T COG1217           4 DIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGG   83 (603)
T ss_pred             ccceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccc
Confidence            45689999999999999999998443  321            1112223344444444444558899999999999999


Q ss_pred             cccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC--
Q 028305           77 LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG--  154 (210)
Q Consensus        77 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~--  154 (210)
                      ..+..++.+|++++++|+....-    .+..-.+.+.+..    +.+-|+|+||+|...+.+..+..+-...|. ..+  
T Consensus        84 EVERvl~MVDgvlLlVDA~EGpM----PQTrFVlkKAl~~----gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~-~L~A~  154 (603)
T COG1217          84 EVERVLSMVDGVLLLVDASEGPM----PQTRFVLKKALAL----GLKPIVVINKIDRPDARPDEVVDEVFDLFV-ELGAT  154 (603)
T ss_pred             hhhhhhhhcceEEEEEEcccCCC----CchhhhHHHHHHc----CCCcEEEEeCCCCCCCCHHHHHHHHHHHHH-HhCCC
Confidence            99999999999999999987422    1222222222222    667788999999988765555444444443 232  


Q ss_pred             ----CCcEEEecCCCCC----------ChHHHHHHHHHHH
Q 028305          155 ----NIPYFETSAKEDC----------NIDEAFLCVAEIA  180 (210)
Q Consensus       155 ----~~~~~~~Sa~~~~----------~v~~~~~~l~~~~  180 (210)
                          ..+++..|++.|.          ++.-+|+.|++.+
T Consensus       155 deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hv  194 (603)
T COG1217         155 DEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHV  194 (603)
T ss_pred             hhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhC
Confidence                4789999998663          4455555555543

>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=99.49  E-value=1.7e-14  Score=105.43  Aligned_cols=115  Identities=15%  Similarity=0.101  Sum_probs=60.9

Q ss_pred             EEEEEeCCCcccccccccccc--------cCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           62 TLQIWDTAGQERFQSLGSAFY--------RGADCCVLVYDVNVQKT-FESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~~~~~--------~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      .+.++|||||.++...+....        ...-++++++|.....+ ...+..++..+......    +.|.|.|+||+|
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~----~lP~vnvlsK~D  167 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRL----ELPHVNVLSKID  167 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHH----TSEEEEEE--GG
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhC----CCCEEEeeeccC
Confidence            589999999988665554332        33458888998764322 11222222222211111    789999999999


Q ss_pred             CCCCCC--------------------cccchHHHHHHHHHcCCC-cEEEecCCCCCChHHHHHHHHHHH
Q 028305          133 TDGGSS--------------------RVVPQKKALEWCAYRGNI-PYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       133 ~~~~~~--------------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +.+...                    .....+.+..+....+.. .++++|+.+++++.+++..+-+++
T Consensus       168 l~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  168 LLSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             GS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            976210                    011122233333334445 799999999999999999887764

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.49  E-value=1.1e-12  Score=99.78  Aligned_cols=111  Identities=14%  Similarity=0.097  Sum_probs=70.8

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR  139 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~  139 (210)
                      .+.+.++||+|...-.   ......+|.++++.+....+....+.   ..+.         .+..++|+||+|+......
T Consensus       148 g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k---~gi~---------E~aDIiVVNKaDl~~~~~a  212 (332)
T PRK09435        148 GYDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIK---KGIM---------ELADLIVINKADGDNKTAA  212 (332)
T ss_pred             CCCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHH---hhhh---------hhhheEEeehhcccchhHH
Confidence            3578999999965222   22466799999997644333332222   1121         2245899999998764323


Q ss_pred             ccchHHHHHHHHHc------CCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          140 VVPQKKALEWCAYR------GNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       140 ~~~~~~~~~~~~~~------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      .....++.......      ...+++.+|+.++.|++++++.+.+.+.....
T Consensus       213 ~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~  264 (332)
T PRK09435        213 RRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTA  264 (332)
T ss_pred             HHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            33334444443321      22579999999999999999999998764444

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.48  E-value=2e-12  Score=95.18  Aligned_cols=125  Identities=15%  Similarity=0.112  Sum_probs=74.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc--c-c------
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ--S-L------   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--~-~------   77 (210)
                      .....++|+|+|.+|+|||||+|+|++...... .....+..........++  ..+.+|||||..+..  . .      
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~  104 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKILS  104 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHHH
Confidence            456789999999999999999999998764322 111222333333333444  568999999965431  0 1      


Q ss_pred             -cccccc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           78 -GSAFYR--GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        78 -~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                       ...++.  ..|++++|..++....-..-...++.+.......-  -.++++|.||+|....
T Consensus       105 ~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i--~~~~ivV~T~~d~~~p  164 (249)
T cd01853         105 SIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSI--WRNAIVVLTHAASSPP  164 (249)
T ss_pred             HHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhh--HhCEEEEEeCCccCCC
Confidence             112232  46888888777653211111233334433222111  2379999999998543

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.47  E-value=3.7e-13  Score=106.20  Aligned_cols=165  Identities=20%  Similarity=0.230  Sum_probs=110.6

Q ss_pred             ccccccccceEEEEEEcCCCCcHHHHHHHHhhCcC--C---------------------------CcccceeeeEEEEEE
Q 028305            3 ISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKF--S---------------------------QQYKATIGADFVTKE   53 (210)
Q Consensus         3 ~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~--~---------------------------~~~~~~~~~~~~~~~   53 (210)
                      +..+......++++|+|+..+|||||+.+++..--  .                           .......++....+.
T Consensus       168 ~~~q~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~  247 (603)
T KOG0458|consen  168 IDEQSDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKT  247 (603)
T ss_pred             cccccCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeee
Confidence            34445566889999999999999999998762211  1                           011112234445555


Q ss_pred             EEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh---hHHHHH--HHHHHHHHhcCCCCCCCCCEEEEE
Q 028305           54 LQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK---TFESLQ--NWREEFLKQADPGEHEACPFVLLG  128 (210)
Q Consensus        54 ~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~--~~~~~l~~~~~~~~~~~~p~ilv~  128 (210)
                      ..++.....++++|+||+.+|..........+|+.++|+|++-..   .|+...  +-...+.+.+.     -.-++|++
T Consensus       248 ~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-----i~qlivai  322 (603)
T KOG0458|consen  248 TWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-----ISQLIVAI  322 (603)
T ss_pred             EEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-----cceEEEEe
Confidence            566666778999999999999998888899999999999998532   222111  12223333332     22589999


Q ss_pred             ecCCCCCCC--CcccchHHHHHHH-HHcC----CCcEEEecCCCCCChHHH
Q 028305          129 NKIDTDGGS--SRVVPQKKALEWC-AYRG----NIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       129 ~K~D~~~~~--~~~~~~~~~~~~~-~~~~----~~~~~~~Sa~~~~~v~~~  172 (210)
                      ||+|+.+-.  .++.....+..|+ +..+    .+.++++|+..|+|+...
T Consensus       323 NKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  323 NKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            999997642  2344455555666 3333    467999999999998744

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.46  E-value=6.3e-13  Score=111.95  Aligned_cols=118  Identities=18%  Similarity=0.159  Sum_probs=78.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC--Cc--------------ccceeeeEEE--EEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS--QQ--------------YKATIGADFV--TKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~--~~--------------~~~~~~~~~~--~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      +...+|+++|+.++|||||+.+|+...-.  ..              ...+.++...  ...+..++....+.++||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            45678999999999999999999743211  00              0001111111  112233445678999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .+|.......++.+|++|+|+|............|. .....       ++|.++++||+|+..
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~-~~~~~-------~~~~iv~iNK~D~~~  153 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLR-QALRE-------RVKPVLFINKVDRLI  153 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHH-HHHHc-------CCCeEEEEECchhhc
Confidence            999888888899999999999988653333222232 22221       557899999999864

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.46  E-value=2.7e-12  Score=95.99  Aligned_cols=124  Identities=15%  Similarity=0.118  Sum_probs=72.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc-------c
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG-------S   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-------~   79 (210)
                      .+...++|+++|.+|+||||++|+|++...... .....+..........++  ..+.++||||..+.....       .
T Consensus        34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik  111 (313)
T TIGR00991        34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNIIK  111 (313)
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHHH
Confidence            346789999999999999999999997754211 111112222222233344  679999999955432111       1


Q ss_pred             ccc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           80 AFY--RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        80 ~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .++  ...|+++||..++.......-...+..+.......-  -.++|+|.|+.|...
T Consensus       112 ~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~i--w~~~IVVfTh~d~~~  167 (313)
T TIGR00991       112 RFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDI--WRKSLVVLTHAQFSP  167 (313)
T ss_pred             HHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhh--hccEEEEEECCccCC
Confidence            111  258999999766543211111233344443322111  237999999999753

>cd01882 BMS1 Bms1

Probab=99.45  E-value=2e-12  Score=94.21  Aligned_cols=145  Identities=18%  Similarity=0.138  Sum_probs=85.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ...+..|+++|++|+|||||++.+.............+. +.  ....  ....+.++||||..   ......++.+|++
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i~--i~~~--~~~~i~~vDtPg~~---~~~l~~ak~aDvV  107 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-IT--VVTG--KKRRLTFIECPNDI---NAMIDIAKVADLV  107 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-EE--EEec--CCceEEEEeCCchH---HHHHHHHHhcCEE
Confidence            356788999999999999999999864221111111110 11  1111  34568899999854   2223346789999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE-EEEEecCCCCCCCC-cccchHHHHH-HH-HHcCCCcEEEecCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF-VLLGNKIDTDGGSS-RVVPQKKALE-WC-AYRGNIPYFETSAK  164 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~-ilv~~K~D~~~~~~-~~~~~~~~~~-~~-~~~~~~~~~~~Sa~  164 (210)
                      ++++|.+....... ...+..+...       +.|. ++|+||+|+.+... .....+.++. +. ......+++.+||+
T Consensus       108 llviDa~~~~~~~~-~~i~~~l~~~-------g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~  179 (225)
T cd01882         108 LLLIDASFGFEMET-FEFLNILQVH-------GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGI  179 (225)
T ss_pred             EEEEecCcCCCHHH-HHHHHHHHHc-------CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeec
Confidence            99999976443222 2233333221       4574 55999999864321 1222233333 22 12345789999998


Q ss_pred             CCCCh
Q 028305          165 EDCNI  169 (210)
Q Consensus       165 ~~~~v  169 (210)
                      +...+
T Consensus       180 ~~~~~  184 (225)
T cd01882         180 VHGRY  184 (225)
T ss_pred             cCCCC
Confidence            86443

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.45  E-value=1.5e-12  Score=97.37  Aligned_cols=141  Identities=18%  Similarity=0.164  Sum_probs=84.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCc----------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc---
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ----------YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL---   77 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~---   77 (210)
                      -.|+|+|+|..|+|||||+|.|++......          ...+..+........-++..+.+.++||||..+....   
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            469999999999999999999996654322          1123344444555666788899999999993321110   


Q ss_pred             ---cccc---------------------ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           78 ---GSAF---------------------YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        78 ---~~~~---------------------~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                         ...|                     =...|+++|.++.+.+.--..-...++.+..        .+++|-|+.|+|.
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~--------~vNvIPvIaKaD~  154 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSK--------RVNVIPVIAKADT  154 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHTT--------TSEEEEEESTGGG
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhcc--------cccEEeEEecccc
Confidence               0000                     1247899999998754211111234455533        6789999999998


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ....+.....+.+..-++..+ +.++.
T Consensus       155 lt~~el~~~k~~i~~~l~~~~-I~~f~  180 (281)
T PF00735_consen  155 LTPEELQAFKQRIREDLEENN-IKIFD  180 (281)
T ss_dssp             S-HHHHHHHHHHHHHHHHHTT---S--
T ss_pred             cCHHHHHHHHHHHHHHHHHcC-ceeec
Confidence            765545556666666666666 55554

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.45  E-value=4.2e-13  Score=114.35  Aligned_cols=119  Identities=21%  Similarity=0.182  Sum_probs=81.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC----------------CcccceeeeEEEEEEEEe--------------C
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS----------------QQYKATIGADFVTKELQM--------------D   57 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~--------------~   57 (210)
                      ..+...+|+|+|+.++|||||+.+|+...-.                .+...+.++.........              .
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            3556889999999999999999999843311                001111111211111211              2


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      +....++++||||+.+|.......++.+|++|+|+|+...-......-| ..+...       ++|+++++||+|+.
T Consensus        95 ~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~-~~~~~~-------~~p~i~~iNK~D~~  163 (843)
T PLN00116         95 GNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVL-RQALGE-------RIRPVLTVNKMDRC  163 (843)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHH-HHHHHC-------CCCEEEEEECCccc
Confidence            2357789999999999988888889999999999999876443333333 333222       77999999999986

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.45  E-value=1.4e-12  Score=86.23  Aligned_cols=114  Identities=25%  Similarity=0.332  Sum_probs=78.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCccc-ceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYK-ATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      +||+++|+.|+|||+|+.++....+...+. ++.+                           +......+.+.++.+++|
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            589999999999999999998777653332 2221                           222234456778999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |+..+..+++.+  |...+.....    .++|.++++||.|+.+.  .....++.         ..++++|+++|.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k----~dl~~~~~~nk~dl~~~--~~~~~~~~---------~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNK----SDLPILVGGNRDVLEEE--RQVATEEG---------LEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCC----CCCcEEEEeechhhHhh--CcCCHHHH---------HHHHHHhCCCcchhh
Confidence            999999988765  6655543322    26789999999998542  22222222         234567889999874

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.44  E-value=6.9e-13  Score=101.68  Aligned_cols=165  Identities=16%  Similarity=0.206  Sum_probs=82.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccce----eeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccc--
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKAT----IGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAF--   81 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~--   81 (210)
                      ...+++|+|+|.+|+|||||||+|.+-...+. ..++    ++.......+   ...-.+.+||.||.....-....|  
T Consensus        32 ~~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~---p~~pnv~lWDlPG~gt~~f~~~~Yl~  108 (376)
T PF05049_consen   32 DNAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPH---PKFPNVTLWDLPGIGTPNFPPEEYLK  108 (376)
T ss_dssp             HH--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE----SS-TTEEEEEE--GGGSS--HHHHHH
T ss_pred             hcCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCC---CCCCCCeEEeCCCCCCCCCCHHHHHH
Confidence            35689999999999999999999975332211 1111    1111211111   222349999999965433333333  


Q ss_pred             ---ccCCcEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCC--C-------CCCcccchHHHHH
Q 028305           82 ---YRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTD--G-------GSSRVVPQKKALE  148 (210)
Q Consensus        82 ---~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~--~-------~~~~~~~~~~~~~  148 (210)
                         +...|.+|++.+..    |.... ...+.+.+.       +.|+.+|-+|.|..  +       .-.++...+++++
T Consensus       109 ~~~~~~yD~fiii~s~r----f~~ndv~La~~i~~~-------gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~  177 (376)
T PF05049_consen  109 EVKFYRYDFFIIISSER----FTENDVQLAKEIQRM-------GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRE  177 (376)
T ss_dssp             HTTGGG-SEEEEEESSS------HHHHHHHHHHHHT-------T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHH
T ss_pred             HccccccCEEEEEeCCC----CchhhHHHHHHHHHc-------CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHH
Confidence               44578888877643    22222 233444443       67999999999961  1       1111222233333


Q ss_pred             HH----HHcC--CCcEEEecCCC--CCChHHHHHHHHHHHHhccccc
Q 028305          149 WC----AYRG--NIPYFETSAKE--DCNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       149 ~~----~~~~--~~~~~~~Sa~~--~~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      .+    ++.+  ..++|.+|+.+  ..++..+.+.|.+.+..+++..
T Consensus       178 ~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~~  224 (376)
T PF05049_consen  178 NCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRHA  224 (376)
T ss_dssp             HHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHHH
T ss_pred             HHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHHH
Confidence            32    2223  34689999875  4567778888887776665533

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.44  E-value=7.1e-13  Score=97.78  Aligned_cols=168  Identities=16%  Similarity=0.125  Sum_probs=113.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCc---CCCcccceeeeEEEEEEEEe------------------------CCeEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNK---FSQQYKATIGADFVTKELQM------------------------DDKLVT   62 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~------------------------~~~~~~   62 (210)
                      ++.++|.++|+..-|||||.++|.+--   ++.+...+.++...+....+                        ..-...
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            789999999999999999999987432   11111112222111111000                        011246


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP  142 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~  142 (210)
                      +.|.|.|||+.+...+.+-..-.|++++|+..+.+..--.....+..+.-..      -..+|++-||.|+...+.....
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIig------ik~iiIvQNKIDlV~~E~AlE~  161 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIG------IKNIIIVQNKIDLVSRERALEN  161 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhc------cceEEEEecccceecHHHHHHH
Confidence            8899999999887777777777899999999987543222222233332221      2368999999999886555666


Q ss_pred             hHHHHHHHHHcC--CCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          143 QKKALEWCAYRG--NIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       143 ~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      .++++.|.+-..  +.+++++||..+.|++-+++.|...+..-
T Consensus       162 y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP  204 (415)
T COG5257         162 YEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTP  204 (415)
T ss_pred             HHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCC
Confidence            777777775433  46899999999999999998887776543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.43  E-value=1.4e-12  Score=96.11  Aligned_cols=96  Identities=17%  Similarity=0.149  Sum_probs=75.8

Q ss_pred             ccccccccccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      +++..+...+++++|++++|||+.++. ++..+..|+..+..       .++|+++|+||+|+.+.  .....+....+.
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~-------~~i~~vIV~NK~DL~~~--~~~~~~~~~~~~   94 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA-------QNIEPIIVLNKIDLLDD--EDMEKEQLDIYR   94 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH-------CCCCEEEEEECcccCCC--HHHHHHHHHHHH
Confidence            556677778899999999999999887 89999999876643       27899999999999653  333334444443


Q ss_pred             HHcCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          151 AYRGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       151 ~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                       ..+ .+++++||++|.|++++|+.+..
T Consensus        95 -~~g-~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        95 -NIG-YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             -HCC-CeEEEEecCCchhHHHHHhhhcC
Confidence             455 78999999999999999998864

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PTZ00416 elongation factor 2; Provisional

Probab=99.43  E-value=8.1e-13  Score=112.46  Aligned_cols=118  Identities=19%  Similarity=0.187  Sum_probs=79.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC--C--------------cccceeeeEEEEEEEEeC--------CeEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS--Q--------------QYKATIGADFVTKELQMD--------DKLVTLQ   64 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~--~--------------~~~~~~~~~~~~~~~~~~--------~~~~~~~   64 (210)
                      .+...+|+++|+.++|||||+++|+...-.  .              +...+.++..........        +....+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            345679999999999999999999853211  0              001111111111122222        2256799


Q ss_pred             EEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        65 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ++||||+.++.......++.+|++|+|+|....-..... ..+..+...       ++|+++++||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~~-------~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQE-------RIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHHc-------CCCEEEEEEChhhh
Confidence            999999999988888889999999999999875333332 223333322       67999999999986

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.43  E-value=5.8e-13  Score=104.36  Aligned_cols=170  Identities=24%  Similarity=0.367  Sum_probs=138.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      -+.+|+.|+|..++|||+|+++++.+.|.....+..+  .+++++.+++....+.+.|-+|..+     ..|...+|++|
T Consensus        28 ipelk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavI  100 (749)
T KOG0705|consen   28 IPELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVV  100 (749)
T ss_pred             cchhheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCch-----hhhhhhccceE
Confidence            4678999999999999999999999988755443332  4467777888888899999888432     34566789999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +||.+.+..+|+.+..+...+..+..   ...+|+++++++.-......+.+...+.+.++..+....++++++.+|.++
T Consensus       101 fvf~~~d~~s~q~v~~l~~~l~~~r~---r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv  177 (749)
T KOG0705|consen  101 FVFSVEDEQSFQAVQALAHEMSSYRN---ISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNV  177 (749)
T ss_pred             EEEEeccccCHHHHHHHHhhcccccc---cccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhH
Confidence            99999999999998877766654433   347899999998877666667888888888888888899999999999999


Q ss_pred             HHHHHHHHHHHHhccccccc
Q 028305          170 DEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~~  189 (210)
                      ..+|+.+..++...++.+..
T Consensus       178 ~rvf~~~~~k~i~~~~~qq~  197 (749)
T KOG0705|consen  178 ERVFQEVAQKIVQLRKYQQL  197 (749)
T ss_pred             HHHHHHHHHHHHHHHhhhhc
Confidence            99999999999888665554

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.43  E-value=7.7e-12  Score=93.31  Aligned_cols=165  Identities=21%  Similarity=0.197  Sum_probs=102.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC----cCCC---cccceeeeEEEEEEEEe-------CCeEEEEEEEeCCCcccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN----KFSQ---QYKATIGADFVTKELQM-------DDKLVTLQIWDTAGQERF   74 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~----~~~~---~~~~~~~~~~~~~~~~~-------~~~~~~~~i~D~~g~~~~   74 (210)
                      .+..+++.++|+..||||||.++|..-    .|..   ....+.+.+.....+.+       .++.+++.++|+||+...
T Consensus         4 ~p~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasL   83 (522)
T KOG0461|consen    4 PPSNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASL   83 (522)
T ss_pred             CCceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHH
Confidence            345699999999999999999998732    2222   22233344444333333       455678999999999866


Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH---
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC---  150 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~---  150 (210)
                      .........-.|..++|+|+.....-...+. .+.++.         ....++|+||+|...+..+....++.....   
T Consensus        84 IRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~---------c~klvvvinkid~lpE~qr~ski~k~~kk~~Kt  154 (522)
T KOG0461|consen   84 IRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL---------CKKLVVVINKIDVLPENQRASKIEKSAKKVRKT  154 (522)
T ss_pred             HHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh---------ccceEEEEeccccccchhhhhHHHHHHHHHHHH
Confidence            5555555556699999999976422222221 222222         235788889998765433333223222222   


Q ss_pred             -HH---cCCCcEEEecCCCC----CChHHHHHHHHHHHHh
Q 028305          151 -AY---RGNIPYFETSAKED----CNIDEAFLCVAEIALK  182 (210)
Q Consensus       151 -~~---~~~~~~~~~Sa~~~----~~v~~~~~~l~~~~~~  182 (210)
                       +.   .++.+++++|++.|    .++.++.+.|.+++.+
T Consensus       155 Le~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  155 LESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             HHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence             11   13588999999999    6666666666666544

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.43  E-value=7.6e-12  Score=95.95  Aligned_cols=83  Identities=22%  Similarity=0.126  Sum_probs=58.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeE---------------EEEEEEeCCCcccc---
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL---------------VTLQIWDTAGQERF---   74 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~---   74 (210)
                      ++|+++|.||+|||||+|+|++........|.++++.....+.+.+..               ..+.++|+||...-   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            689999999999999999999877544444566656655555544321               25899999994321   


Q ss_pred             ----cccccccccCCcEEEEEEECC
Q 028305           75 ----QSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        75 ----~~~~~~~~~~~d~vi~v~d~~   95 (210)
                          .......++.+|++++|+|..
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence                112233467899999999984

>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=99.42  E-value=1.7e-12  Score=93.77  Aligned_cols=165  Identities=18%  Similarity=0.143  Sum_probs=93.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcc--cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc-----------c
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQY--KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG-----------S   79 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------~   79 (210)
                      .+|+|+|..|+||||++|.+++.......  ....+..........++  ..+.++||||..+.....           .
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            58999999999999999999977654322  12233344444446667  557899999943322111           1


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc-----hHHHHHHHHHcC
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP-----QKKALEWCAYRG  154 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~-----~~~~~~~~~~~~  154 (210)
                      ......|++++|+..... +... ...+..+.......-  -..++||.|..|.......+..     ......+.+..+
T Consensus        79 ~~~~g~ha~llVi~~~r~-t~~~-~~~l~~l~~~FG~~~--~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~  154 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGRF-TEED-REVLELLQEIFGEEI--WKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCG  154 (212)
T ss_dssp             HTTT-ESEEEEEEETTB--SHHH-HHHHHHHHHHHCGGG--GGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hccCCCeEEEEEEecCcc-hHHH-HHHHHHHHHHccHHH--HhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcC
Confidence            123457999999998832 2222 223333333332211  1258888898887654321111     123556666666


Q ss_pred             CCcEEEecCC------CCCChHHHHHHHHHHHHhcc
Q 028305          155 NIPYFETSAK------EDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       155 ~~~~~~~Sa~------~~~~v~~~~~~l~~~~~~~~  184 (210)
                       ..|...+.+      ....+.++++.+-+...++.
T Consensus       155 -~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  155 -GRYHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             -TCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             -CEEEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence             567776665      34567788887777766654

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 ....

>cd00066 G-alpha G protein alpha subunit

Probab=99.41  E-value=2.1e-11  Score=93.25  Aligned_cols=123  Identities=16%  Similarity=0.146  Sum_probs=83.3

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----------KTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                      .+.+.+||++|+...+..|..++.+++++|+|+|+++-          ..+......+..+   .......+.|+++++|
T Consensus       160 ~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i---~~~~~~~~~pill~~N  236 (317)
T cd00066         160 NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSI---CNSRWFANTSIILFLN  236 (317)
T ss_pred             ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHH---HhCccccCCCEEEEcc
Confidence            47799999999999999999999999999999999873          2233333333333   3333334889999999


Q ss_pred             cCCCCCCC--------------CcccchHHHHHHHHH---------cCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          130 KIDTDGGS--------------SRVVPQKKALEWCAY---------RGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       130 K~D~~~~~--------------~~~~~~~~~~~~~~~---------~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|+....              ......+.+..+...         ...+.+..++|.+..++..+|+.+.+.+++...
T Consensus       237 K~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~l  315 (317)
T cd00066         237 KKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNNL  315 (317)
T ss_pred             ChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHHh
Confidence            99963210              001122233222211         123556778888899999999999888887654

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.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.39  E-value=1.2e-12  Score=92.34  Aligned_cols=152  Identities=19%  Similarity=0.272  Sum_probs=99.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc-----ccccccCC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL-----GSAFYRGA   85 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----~~~~~~~~   85 (210)
                      .-||+++|..|||||++-..+..+-.. +...++.++++.-....+-| ++.+.+||++|++.+...     ....++++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflG-nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLG-NLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhh-hheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            348999999999999987665533221 23445555666655555544 367999999998865433     34567889


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC---CCcEEEec
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG---NIPYFETS  162 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~S  162 (210)
                      +++++|||++..+-...+..+.+.+...+....  ...+.+..+|.|+.....++...++-........   .+.++++|
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP--~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Ts  160 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNSP--EAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTS  160 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcCC--cceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccc
Confidence            999999999987665566555554433322211  4468888999999876555544444433333332   36678887


Q ss_pred             CCCC
Q 028305          163 AKED  166 (210)
Q Consensus       163 a~~~  166 (210)
                      ..+.
T Consensus       161 iwDe  164 (295)
T KOG3886|consen  161 IWDE  164 (295)
T ss_pred             hhhH
Confidence            7643

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.38  E-value=1.6e-11  Score=88.54  Aligned_cols=152  Identities=16%  Similarity=0.157  Sum_probs=83.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc------------ccc----eeeeEEEEEEEE-----------------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ------------YKA----TIGADFVTKELQ-----------------   55 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~------------~~~----~~~~~~~~~~~~-----------------   55 (210)
                      +.....|+|+|+.|+|||||+++++.......            ...    ..+...  ....                 
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~--~~l~~gcic~~~~~~~~~~l~   96 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPA--IQINTGKECHLDAHMVAHALE   96 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcE--EEEcCCCcccCChHHHHHHHH
Confidence            34688999999999999999999874311000            000    000000  0000                 


Q ss_pred             -eCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           56 -MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        56 -~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                       .......+.+++|.|.-...   ..+.-..+..+.|+|..+.+..  +......+          ..|.++++||+|+.
T Consensus        97 ~~~~~~~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~--~~~~~~~~----------~~a~iiv~NK~Dl~  161 (207)
T TIGR00073        97 DLPLDDIDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDK--PLKYPGMF----------KEADLIVINKADLA  161 (207)
T ss_pred             HhccCCCCEEEEecCCCcCCC---cccccccCeEEEEEecCcccch--hhhhHhHH----------hhCCEEEEEHHHcc
Confidence             00012346667776621000   1111124555677777654321  11111111          45889999999997


Q ss_pred             CCCCcccchHHHHHHHH-HcCCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          135 GGSSRVVPQKKALEWCA-YRGNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +..  ....++.....+ ..+..+++++|+++|.|++++++++.+.
T Consensus       162 ~~~--~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       162 EAV--GFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             ccc--hhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            531  111222322222 2334789999999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.37  E-value=2.3e-11  Score=93.60  Aligned_cols=163  Identities=14%  Similarity=0.153  Sum_probs=97.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC----cCC------------Ccccce---eeeEEEE---EEEE---eCCeEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN----KFS------------QQYKAT---IGADFVT---KELQ---MDDKLVTL   63 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~----~~~------------~~~~~~---~~~~~~~---~~~~---~~~~~~~~   63 (210)
                      -.-.+.|.|+|+.++|||||+++|.+.    ...            ++..++   +++++..   ..+.   .++...++
T Consensus        14 T~G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~V   93 (492)
T TIGR02836        14 TQGDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKV   93 (492)
T ss_pred             hCCcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccE
Confidence            345789999999999999999999977    222            223333   2333322   2222   24556789


Q ss_pred             EEEeCCCccccccc-----------------------------cccccc-CCcEEEEEE-ECC----Ch-hhHHHHHHHH
Q 028305           64 QIWDTAGQERFQSL-----------------------------GSAFYR-GADCCVLVY-DVN----VQ-KTFESLQNWR  107 (210)
Q Consensus        64 ~i~D~~g~~~~~~~-----------------------------~~~~~~-~~d~vi~v~-d~~----~~-~s~~~~~~~~  107 (210)
                      .++||+|.+.-..+                             +...+. ++++.|+|. |.+    .+ ...+.-..++
T Consensus        94 rlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i  173 (492)
T TIGR02836        94 RLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVI  173 (492)
T ss_pred             EEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHH
Confidence            99999993321111                             123344 789888888 664    01 1223335667


Q ss_pred             HHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          108 EEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       108 ~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ..+...       ++|+++|+|+.|-...    ...+....+..+++ ++++.+|+.+- .-+++..-+.+.+++..
T Consensus       174 ~eLk~~-------~kPfiivlN~~dp~~~----et~~l~~~l~eky~-vpvl~v~c~~l-~~~DI~~il~~vL~EFP  237 (492)
T TIGR02836       174 EELKEL-------NKPFIILLNSTHPYHP----ETEALRQELEEKYD-VPVLAMDVESM-RESDILSVLEEVLYEFP  237 (492)
T ss_pred             HHHHhc-------CCCEEEEEECcCCCCc----hhHHHHHHHHHHhC-CceEEEEHHHc-CHHHHHHHHHHHHhcCC
Confidence            777654       7899999999994322    13333445556666 88888887532 33444444444444443

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.37  E-value=2e-11  Score=92.80  Aligned_cols=107  Identities=22%  Similarity=0.157  Sum_probs=65.2

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR  139 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~  139 (210)
                      .+.+.|+||+|...   .....+..+|.++++...   .+.+.+......+.         .+|.++|+||+|+......
T Consensus       126 g~D~viidT~G~~~---~e~~i~~~aD~i~vv~~~---~~~~el~~~~~~l~---------~~~~ivv~NK~Dl~~~~~~  190 (300)
T TIGR00750       126 GYDVIIVETVGVGQ---SEVDIANMADTFVVVTIP---GTGDDLQGIKAGLM---------EIADIYVVNKADGEGATNV  190 (300)
T ss_pred             CCCEEEEeCCCCch---hhhHHHHhhceEEEEecC---CccHHHHHHHHHHh---------hhccEEEEEcccccchhHH
Confidence            46789999998432   222346677888887543   33344433333332         5688999999999754211


Q ss_pred             ccchHH----HHHHHHH--cCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          140 VVPQKK----ALEWCAY--RGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       140 ~~~~~~----~~~~~~~--~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ......    ...+...  ....+++++|++++.|++++++++.+...
T Consensus       191 ~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       191 TIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            110111    1111111  11246999999999999999999998744

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=2.9e-11  Score=88.38  Aligned_cols=192  Identities=14%  Similarity=0.063  Sum_probs=117.9

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhhCc----------CC----CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNK----------FS----QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~----------~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      +-....+.++|..+|+.+-|||||.-++..--          +.    .......++.+....+.++..+..+-..|+||
T Consensus         5 kf~r~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPG   84 (394)
T COG0050           5 KFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPG   84 (394)
T ss_pred             hhcCCCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCC
Confidence            34456789999999999999999998765110          10    01111223334444444433344567779999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCC-CcccchHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGS-SRVVPQKKALE  148 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~-~~~~~~~~~~~  148 (210)
                      +.+|-........+.|+.|+|++..+..--......  .+.+..      ++| ++++.||+|+.++. ..+..+.+.++
T Consensus        85 HaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHi--Llarqv------Gvp~ivvflnK~Dmvdd~ellelVemEvre  156 (394)
T COG0050          85 HADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI--LLARQV------GVPYIVVFLNKVDMVDDEELLELVEMEVRE  156 (394)
T ss_pred             hHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhh--hhhhhc------CCcEEEEEEecccccCcHHHHHHHHHHHHH
Confidence            999988888888889999999999884322222111  111111      554 77889999998743 34556678888


Q ss_pred             HHHHcC----CCcEEEecCCC-CCC---hHHHHHHHHHHHHhcccccccCCCCCcceecccccc
Q 028305          149 WCAYRG----NIPYFETSAKE-DCN---IDEAFLCVAEIALKNEHKDIYYQPQGISETVSEVEQ  204 (210)
Q Consensus       149 ~~~~~~----~~~~~~~Sa~~-~~~---v~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (210)
                      ++..++    ..+++.-||.. .+|   -.+-...|.+++.++.+........+....++....
T Consensus       157 LLs~y~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~Per~~dkPflmpvEdvfs  220 (394)
T COG0050         157 LLSEYGFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTPERDIDKPFLMPVEDVFS  220 (394)
T ss_pred             HHHHcCCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCCCCcccccccccceeeEE
Confidence            888887    35677777743 222   233344455555556555555444444444444433

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.35  E-value=1.2e-11  Score=100.28  Aligned_cols=172  Identities=22%  Similarity=0.247  Sum_probs=113.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC----------------CeEEEEEEEeCCCcc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------------DKLVTLQIWDTAGQE   72 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~g~~   72 (210)
                      +-+..-+||+|+..+|||-|+..+.+.+.......+++.++.-..+...                -.---+.++||||++
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghE  551 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHE  551 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCch
Confidence            4566779999999999999999998766554444444333221111111                001237889999999


Q ss_pred             cccccccccccCCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-------CC----
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG-------SS----  138 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-------~~----  138 (210)
                      .|..+.......||.+|+|+|+-+.   .+.+.+    +.+...       +.|+||.+||+|..=.       ..    
T Consensus       552 sFtnlRsrgsslC~~aIlvvdImhGlepqtiESi----~lLR~r-------ktpFivALNKiDRLYgwk~~p~~~i~~~l  620 (1064)
T KOG1144|consen  552 SFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESI----NLLRMR-------KTPFIVALNKIDRLYGWKSCPNAPIVEAL  620 (1064)
T ss_pred             hhhhhhhccccccceEEEEeehhccCCcchhHHH----HHHHhc-------CCCeEEeehhhhhhcccccCCCchHHHHH
Confidence            9999999999999999999999764   333332    222221       7799999999997311       00    


Q ss_pred             ----c-------ccchHHHHHHHHHc-------------CCCcEEEecCCCCCChHHHHHHHHHHHHhcccccccCC
Q 028305          139 ----R-------VVPQKKALEWCAYR-------------GNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ  191 (210)
Q Consensus       139 ----~-------~~~~~~~~~~~~~~-------------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~  191 (210)
                          .       ......+.+|+..-             ..+.++++||..|+||-+|+.+|++........+-.|.
T Consensus       621 kkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl~y~  697 (1064)
T KOG1144|consen  621 KKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKLAYV  697 (1064)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHHhhh
Confidence                0       00111112222111             02558999999999999999999999877766544443

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.34  E-value=2.1e-11  Score=93.76  Aligned_cols=158  Identities=19%  Similarity=0.101  Sum_probs=111.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      .|+-.|+-.-|||||++.+.+..-.   .....+++++.........+  ..+.|+|.||++++-......+...|..++
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            4778899999999999999865543   33344555666555544433  479999999999998888888889999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |++.++.-.....+.. ..+ ....     ....++|+||+|..+....+...+++..... +.+.+++.+|+++|+|++
T Consensus        80 vV~~deGl~~qtgEhL-~iL-dllg-----i~~giivltk~D~~d~~r~e~~i~~Il~~l~-l~~~~i~~~s~~~g~GI~  151 (447)
T COG3276          80 VVAADEGLMAQTGEHL-LIL-DLLG-----IKNGIIVLTKADRVDEARIEQKIKQILADLS-LANAKIFKTSAKTGRGIE  151 (447)
T ss_pred             EEeCccCcchhhHHHH-HHH-HhcC-----CCceEEEEeccccccHHHHHHHHHHHHhhcc-cccccccccccccCCCHH
Confidence            9999765444443322 122 1111     2246999999999865322233333333333 445789999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          171 EAFLCVAEIAL  181 (210)
Q Consensus       171 ~~~~~l~~~~~  181 (210)
                      ++.+.|....-
T Consensus       152 ~Lk~~l~~L~~  162 (447)
T COG3276         152 ELKNELIDLLE  162 (447)
T ss_pred             HHHHHHHHhhh
Confidence            99999999984

>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=5.6e-12  Score=87.97  Aligned_cols=63  Identities=19%  Similarity=0.263  Sum_probs=43.0

Q ss_pred             EEEEEeCCCccc----ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           62 TLQIWDTAGQER----FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        62 ~~~i~D~~g~~~----~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      .+.++||||...    .......++..+|++|+|.+.++..+-.....+.......       ...+++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~-------~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD-------KSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT-------CSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC-------CCeEEEEEcCC
Confidence            488999999532    3355677889999999999999865544444444444322       33589999984

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 ....

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.33  E-value=1.1e-11  Score=95.05  Aligned_cols=121  Identities=19%  Similarity=0.250  Sum_probs=84.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh--hCcCC--------------C----cccceeeeEEEEEEEEeCCeEEEEEEEeCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV--YNKFS--------------Q----QYKATIGADFVTKELQMDDKLVTLQIWDTA   69 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~--~~~~~--------------~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   69 (210)
                      .+.-..+++-+|.+|||||-.+|+  ++...              .    .-....++......++++.....+++.|||
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTP   89 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTP   89 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCC
Confidence            456678999999999999999876  21111              0    001122445555555556566889999999


Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS  138 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~  138 (210)
                      ||++|...+...+..+|..++|+|....---..+ +++....-       .++|++-++||.|....++
T Consensus        90 GHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~-KLfeVcrl-------R~iPI~TFiNKlDR~~rdP  150 (528)
T COG4108          90 GHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL-KLFEVCRL-------RDIPIFTFINKLDREGRDP  150 (528)
T ss_pred             CccccchhHHHHHHhhheeeEEEecccCccHHHH-HHHHHHhh-------cCCceEEEeeccccccCCh
Confidence            9999999999999999999999999864322222 22222221       1889999999999976543

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.32  E-value=5.7e-12  Score=93.17  Aligned_cols=166  Identities=15%  Similarity=0.085  Sum_probs=110.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--ccccc------c
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--FQSLG------S   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~------~   79 (210)
                      ......-|.|+|..|+|||||+++|......+...-..+.+.+....+..+. -.+.+.||.|.-.  ...+.      .
T Consensus       174 ~~~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg-~~vlltDTvGFisdLP~~LvaAF~ATL  252 (410)
T KOG0410|consen  174 EGESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSG-NFVLLTDTVGFISDLPIQLVAAFQATL  252 (410)
T ss_pred             ccCCCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCC-cEEEEeechhhhhhCcHHHHHHHHHHH
Confidence            3455677999999999999999999966665554445555555555544333 3477889999432  11111      2


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .-...+|.++.|.|+++|..-......+..+....-+.....-.++=|-||.|..+...    ..+      .   ..-+
T Consensus       253 eeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~----e~E------~---n~~v  319 (410)
T KOG0410|consen  253 EEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV----EEE------K---NLDV  319 (410)
T ss_pred             HHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC----ccc------c---CCcc
Confidence            22567999999999999987777666666665542221111224777888999765311    111      1   1257


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhccccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      .+|+.+|+|.+++.+.+-.+.......+
T Consensus       320 ~isaltgdgl~el~~a~~~kv~~~t~~~  347 (410)
T KOG0410|consen  320 GISALTGDGLEELLKAEETKVASETTVD  347 (410)
T ss_pred             ccccccCccHHHHHHHHHHHhhhhheee
Confidence            7999999999999999988876665533

>smart00275 G_alpha G protein alpha subunit

Probab=99.32  E-value=9.5e-11  Score=90.35  Aligned_cols=122  Identities=16%  Similarity=0.159  Sum_probs=82.2

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----------KTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      ..+.+||.+|+...+..|..++.+++++|+|+|+++-          ..+......+..+   +......+.|++|++||
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l---~~~~~~~~~piil~~NK  260 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESI---CNSRWFANTSIILFLNK  260 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHH---HcCccccCCcEEEEEec
Confidence            5689999999999999999999999999999999963          2333333333333   33333447899999999


Q ss_pred             CCCCCCC----C---------cccchHHHHHHH-----HHc-----CCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          131 IDTDGGS----S---------RVVPQKKALEWC-----AYR-----GNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       131 ~D~~~~~----~---------~~~~~~~~~~~~-----~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|+....    +         .....+.+..+.     ...     ..+....++|.+-.++..+|+.+.+.+++...
T Consensus       261 ~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~l  338 (342)
T smart00275      261 IDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRNL  338 (342)
T ss_pred             HHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHHHH
Confidence            9973210    0         001122222221     111     22556778889999999999998888887654

Subunit of G proteins that contains the guanine nucleotide binding site

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.31  E-value=7.8e-11  Score=88.83  Aligned_cols=144  Identities=19%  Similarity=0.227  Sum_probs=97.5

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc----------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ----------YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   77 (210)
                      ++...|+|+++|+.|+|||||+|.|++......          ..+++.+..+...+.-++.++.++++||||..+.-..
T Consensus        19 k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idN   98 (373)
T COG5019          19 KKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDN   98 (373)
T ss_pred             hcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccc
Confidence            346789999999999999999999996633311          2355556666777777888999999999994432111


Q ss_pred             c--------------cccc--------------cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           78 G--------------SAFY--------------RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        78 ~--------------~~~~--------------~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                      .              ..|+              ..+|+++|.+..+...--.--...++.+..        .+.+|-|+.
T Consensus        99 s~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~ls~--------~vNlIPVI~  170 (373)
T COG5019          99 SKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRLSK--------RVNLIPVIA  170 (373)
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHHhc--------ccCeeeeee
Confidence            0              0111              237899999887653211111233444433        567999999


Q ss_pred             cCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305          130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus       130 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      |+|....++.....+.+.+....+. +++|.
T Consensus       171 KaD~lT~~El~~~K~~I~~~i~~~n-I~vf~  200 (373)
T COG5019         171 KADTLTDDELAEFKERIREDLEQYN-IPVFD  200 (373)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHhC-CceeC
Confidence            9999776666677777777777776 66663

>cd01900 YchF YchF subfamily

Probab=99.31  E-value=2e-11  Score=90.78  Aligned_cols=81  Identities=17%  Similarity=0.137  Sum_probs=57.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeE---------------EEEEEEeCCCccc------
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL---------------VTLQIWDTAGQER------   73 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~------   73 (210)
                      |+++|.||+|||||.|+|++........++++++.....+.+.+..               ..+.++|+||...      
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            5799999999999999999877655555666666666666554432               2589999999432      


Q ss_pred             -ccccccccccCCcEEEEEEECC
Q 028305           74 -FQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        74 -~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                       ........++.+|++++|+|..
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1111223367899999999873

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.30  E-value=3.4e-11  Score=99.61  Aligned_cols=122  Identities=20%  Similarity=0.213  Sum_probs=85.6

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC----Cc------------ccceeeeEEEEEEEEeCCe-EEEEEEEeCCC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS----QQ------------YKATIGADFVTKELQMDDK-LVTLQIWDTAG   70 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----~~------------~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g   70 (210)
                      ......+|.++|+.++|||||..+++...-.    ..            .....+++.........-. ...++++||||
T Consensus         6 ~~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPG   85 (697)
T COG0480           6 PLERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPG   85 (697)
T ss_pred             ccccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCC
Confidence            3667899999999999999999998722211    00            0111122333333332223 47899999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      |-+|.......++-+|++++|+|....-....-.-|.... ++       ++|.++++||+|....+
T Consensus        86 HVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~-~~-------~vp~i~fiNKmDR~~a~  144 (697)
T COG0480          86 HVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD-KY-------GVPRILFVNKMDRLGAD  144 (697)
T ss_pred             ccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh-hc-------CCCeEEEEECccccccC
Confidence            9999999999999999999999998754433333343333 22       88999999999987654

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.26  E-value=3.4e-10  Score=86.04  Aligned_cols=151  Identities=17%  Similarity=0.218  Sum_probs=97.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc---------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ---------YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL   77 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   77 (210)
                      .++...|++.++|+.|.|||||+|.|+...+...         ...+..+......+.-++.+++++++||||..+....
T Consensus        16 ~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdn   95 (366)
T KOG2655|consen   16 VKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDN   95 (366)
T ss_pred             HhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccc
Confidence            3455679999999999999999999987644321         2224455555556666788999999999994332111


Q ss_pred             c--------------c-----------ccc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           78 G--------------S-----------AFY--RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        78 ~--------------~-----------~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      .              .           ..+  ..+|+++|.+..+...--..-...++.+..        .+.+|-|+.|
T Consensus        96 s~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~--------~vNiIPVI~K  167 (366)
T KOG2655|consen   96 SNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSK--------KVNLIPVIAK  167 (366)
T ss_pred             cccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhc--------cccccceeec
Confidence            0              0           111  147899999987654211111233344432        6789999999


Q ss_pred             CCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305          131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus       131 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      +|.....+.....+.+.+.+.... +.++....-..
T Consensus       168 aD~lT~~El~~~K~~I~~~i~~~n-I~vf~fp~~~~  202 (366)
T KOG2655|consen  168 ADTLTKDELNQFKKRIRQDIEEHN-IKVFDFPTDES  202 (366)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHcC-cceecCCCCcc
Confidence            998776556666677777777666 66665554433

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.23  E-value=3.3e-10  Score=92.06  Aligned_cols=121  Identities=18%  Similarity=0.168  Sum_probs=72.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcc-cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-------c---
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQY-KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-------L---   77 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~---   77 (210)
                      ...++|+|+|.+|+||||++|+|++... .... .+.+ ..........++  ..+.++||||..+...       .   
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~T-Tr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~  192 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGT-TSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSS  192 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCc-eEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHH
Confidence            4567999999999999999999998753 3222 1222 222222233444  5689999999554311       1   


Q ss_pred             cccccc--CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           78 GSAFYR--GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        78 ~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      ...++.  .+|++++|..++.......-..++..+...+...-  -.-+|||.|+.|..+
T Consensus       193 Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~I--wk~tIVVFThgD~lp  250 (763)
T TIGR00993       193 VKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSI--WFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHh--HcCEEEEEeCCccCC
Confidence            112333  47999999988643322122244455544433222  126899999999865

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.22  E-value=3.1e-11  Score=83.49  Aligned_cols=80  Identities=18%  Similarity=0.036  Sum_probs=51.1

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH-HcCCCcEEEecCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA-YRGNIPYFETSAKE  165 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~  165 (210)
                      .-|+|+|+...+..  ..+-...+          ...-++|+||.|+.+.-.+  ..+...+-++ -.+..+++++|+++
T Consensus       120 ~~v~VidvteGe~~--P~K~gP~i----------~~aDllVInK~DLa~~v~~--dlevm~~da~~~np~~~ii~~n~kt  185 (202)
T COG0378         120 LRVVVIDVTEGEDI--PRKGGPGI----------FKADLLVINKTDLAPYVGA--DLEVMARDAKEVNPEAPIIFTNLKT  185 (202)
T ss_pred             eEEEEEECCCCCCC--cccCCCce----------eEeeEEEEehHHhHHHhCc--cHHHHHHHHHHhCCCCCEEEEeCCC
Confidence            77888888764321  01111111          1156899999999876333  2233333332 34468999999999


Q ss_pred             CCChHHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEIA  180 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~  180 (210)
                      |.|+++++.++...+
T Consensus       186 g~G~~~~~~~i~~~~  200 (202)
T COG0378         186 GEGLDEWLRFIEPQA  200 (202)
T ss_pred             CcCHHHHHHHHHhhc
Confidence            999999999987654

>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=99.21  E-value=2.2e-11  Score=88.19  Aligned_cols=153  Identities=18%  Similarity=0.164  Sum_probs=87.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-----------Cccccee---------------eeEEEEEEEEeCCe----
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-----------QQYKATI---------------GADFVTKELQMDDK----   59 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-----------~~~~~~~---------------~~~~~~~~~~~~~~----   59 (210)
                      ...+.|.|.|+||+|||||+..|...-..           +.+..+-               ....+.+.+-..+.    
T Consensus        27 g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGl  106 (266)
T PF03308_consen   27 GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGL  106 (266)
T ss_dssp             T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHH
T ss_pred             CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCc
Confidence            45789999999999999999987621110           1110000               01222333322221    


Q ss_pred             --------------EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEE
Q 028305           60 --------------LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV  125 (210)
Q Consensus        60 --------------~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~i  125 (210)
                                    .+.+.+++|.|-..   .-......+|.+++|....-.+..+.++.-+-++            +-+
T Consensus       107 s~~t~~~v~ll~aaG~D~IiiETVGvGQ---sE~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi------------aDi  171 (266)
T PF03308_consen  107 SRATRDAVRLLDAAGFDVIIIETVGVGQ---SEVDIADMADTVVLVLVPGLGDEIQAIKAGIMEI------------ADI  171 (266)
T ss_dssp             HHHHHHHHHHHHHTT-SEEEEEEESSST---HHHHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH-------------SE
T ss_pred             cHhHHHHHHHHHHcCCCEEEEeCCCCCc---cHHHHHHhcCeEEEEecCCCccHHHHHhhhhhhh------------ccE
Confidence                          25577888877321   1122355689999999887665555544433333            569


Q ss_pred             EEEecCCCCCCCCcccchHHHHHHHHHcC------CCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          126 LLGNKIDTDGGSSRVVPQKKALEWCAYRG------NIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       126 lv~~K~D~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +|+||+|...   ......+++.......      ..+++.+||.++.|++++++.|.+..
T Consensus       172 ~vVNKaD~~g---A~~~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~  229 (266)
T PF03308_consen  172 FVVNKADRPG---ADRTVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHR  229 (266)
T ss_dssp             EEEE--SHHH---HHHHHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEeCCChHH---HHHHHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            9999999654   2333444444443222      35899999999999999999988754

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.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=1.1e-09  Score=83.24  Aligned_cols=84  Identities=18%  Similarity=0.103  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC----------------CeEEEEEEEeCCCc----
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------------DKLVTLQIWDTAGQ----   71 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~g~----   71 (210)
                      .+++.+||.||+|||||.|+++.........|..++++......+.                -....+.++|.+|.    
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            4689999999999999999999777544455666666655554431                12457899999882    


Q ss_pred             ---ccccccccccccCCcEEEEEEECC
Q 028305           72 ---ERFQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        72 ---~~~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                         +.....-..-++.+|+++.|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence               223333344578899999999987

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.17  E-value=4.9e-09  Score=75.35  Aligned_cols=162  Identities=17%  Similarity=0.122  Sum_probs=105.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-------cccccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-------FQSLGSAF   81 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~   81 (210)
                      +.-..+|+++|.|.+|||||+..+............++.......+.+++.  .+++.|.||..+       -.......
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~ga--~IQllDLPGIieGAsqgkGRGRQviav  136 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNGA--NIQLLDLPGIIEGASQGKGRGRQVIAV  136 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecCc--eEEEecCcccccccccCCCCCceEEEE
Confidence            455789999999999999999998865554444455667777788888874  578889999322       12334556


Q ss_pred             ccCCcEEEEEEECCChhhHHH-HHHHHHHH-----------------------------------------HHhcCC---
Q 028305           82 YRGADCCVLVYDVNVQKTFES-LQNWREEF-----------------------------------------LKQADP---  116 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~-~~~~~~~l-----------------------------------------~~~~~~---  116 (210)
                      .+.+|.+++|.|.+..+.-.. +..-+..+                                         ..+.-.   
T Consensus       137 ArtaDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Nae  216 (364)
T KOG1486|consen  137 ARTADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAE  216 (364)
T ss_pred             eecccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccce
Confidence            788999999999986543221 12211111                                         000000   


Q ss_pred             -----------------CCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          117 -----------------GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       117 -----------------~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                                       ....-++.+-|-||+|.       +..++...+++.-+   -+-+|+..+.|++.+++.+-+.
T Consensus       217 vl~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID~-------vs~eevdrlAr~Pn---svViSC~m~lnld~lle~iWe~  286 (364)
T KOG1486|consen  217 VLFREDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ-------VSIEEVDRLARQPN---SVVISCNMKLNLDRLLERIWEE  286 (364)
T ss_pred             EEEecCCChHHHHHHHhccceEEEEEEEeeccce-------ecHHHHHHHhcCCC---cEEEEeccccCHHHHHHHHHHH
Confidence                             00002466666677764       44677777776433   4667888899999999988877


Q ss_pred             HHh
Q 028305          180 ALK  182 (210)
Q Consensus       180 ~~~  182 (210)
                      +.-
T Consensus       287 l~L  289 (364)
T KOG1486|consen  287 LNL  289 (364)
T ss_pred             hce
Confidence            643

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=2.2e-10  Score=92.13  Aligned_cols=117  Identities=25%  Similarity=0.258  Sum_probs=82.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccce-----------------eeeEEE---EEEEEeCCeEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT-----------------IGADFV---TKELQMDDKLVTLQIWDT   68 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-----------------~~~~~~---~~~~~~~~~~~~~~i~D~   68 (210)
                      .....+|+++|+-+.|||+|+..|....-+..+...                 .++...   ...-...+..+-++++||
T Consensus       125 p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDT  204 (971)
T KOG0468|consen  125 PERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDT  204 (971)
T ss_pred             cceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecC
Confidence            456789999999999999999998855443111100                 011110   111123566778999999


Q ss_pred             CCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           69 AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        69 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      |||..|.......++.+|++++++|+...-.+.. .+.++...+.       +.|+++|+||.|+
T Consensus       205 PGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhaiq~-------~~~i~vviNKiDR  261 (971)
T KOG0468|consen  205 PGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAIQN-------RLPIVVVINKVDR  261 (971)
T ss_pred             CCcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHHHhc-------cCcEEEEEehhHH
Confidence            9999999999999999999999999987665544 2333332222       7799999999996

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.16  E-value=8.3e-10  Score=78.68  Aligned_cols=150  Identities=18%  Similarity=0.247  Sum_probs=93.8

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCC---------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ---------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL   77 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   77 (210)
                      |+..-.|+|.|+|..|.|||||+|.|+......         ....++.+......+.-++...++.++||||..++...
T Consensus        41 mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN  120 (336)
T KOG1547|consen   41 MKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINN  120 (336)
T ss_pred             HhccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCc
Confidence            344568999999999999999999987433221         12223333444444455677889999999994432211


Q ss_pred             ---c-----------cccc--------------cCCcEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEE
Q 028305           78 ---G-----------SAFY--------------RGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLG  128 (210)
Q Consensus        78 ---~-----------~~~~--------------~~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~  128 (210)
                         |           ..|+              ..+++++|.+..+... +..+ ..+++.+.+        -+.++-|+
T Consensus       121 ~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhs-LrplDieflkrLt~--------vvNvvPVI  191 (336)
T KOG1547|consen  121 DNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHS-LRPLDIEFLKRLTE--------VVNVVPVI  191 (336)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCc-cCcccHHHHHHHhh--------hheeeeeE
Confidence               1           1111              1367888888776432 2221 234444433        34688889


Q ss_pred             ecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305          129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus       129 ~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      .|+|...-+++....+.++.-...++ +.+++--+.+-
T Consensus       192 akaDtlTleEr~~FkqrI~~el~~~~-i~vYPq~~fde  228 (336)
T KOG1547|consen  192 AKADTLTLEERSAFKQRIRKELEKHG-IDVYPQDSFDE  228 (336)
T ss_pred             eecccccHHHHHHHHHHHHHHHHhcC-ccccccccccc
Confidence            99997654457777777777777777 77776655443

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.14  E-value=7.2e-10  Score=84.22  Aligned_cols=127  Identities=15%  Similarity=0.153  Sum_probs=88.5

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh-------hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-------TFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-------s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      +..+.++|.+||...+..|...+.+++++|+|.+++.-+       ....+..-+..+...+...-..+.++|++.||.|
T Consensus       194 ~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~D  273 (354)
T KOG0082|consen  194 GLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKD  273 (354)
T ss_pred             CCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHH
Confidence            367999999999999999999999999999999998521       1223333444455555555556889999999999


Q ss_pred             CCCCC--------------CcccchHHHHHHH--------HHc-CCCcEEEecCCCCCChHHHHHHHHHHHHhccccc
Q 028305          133 TDGGS--------------SRVVPQKKALEWC--------AYR-GNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       133 ~~~~~--------------~~~~~~~~~~~~~--------~~~-~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      +.++.              .. ...+++..+.        ... ..+.+..+.|.+-.+|+.+|..+.+.+...+.++
T Consensus       274 LFeEKi~~~~~~~~Fpdy~G~-~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~nlk~  350 (354)
T KOG0082|consen  274 LFEEKIKKVPLTDCFPDYKGV-NTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNNLKD  350 (354)
T ss_pred             HHHHHhccCchhhhCcCCCCC-CChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHHHHH
Confidence            84321              11 1222222221        111 2345677889999999999999999998877643

>smart00053 DYNc Dynamin, GTPase

Probab=99.14  E-value=5.7e-10  Score=81.45  Aligned_cols=69  Identities=16%  Similarity=0.102  Sum_probs=42.5

Q ss_pred             EEEEEEeCCCccc-------------ccccccccccC-CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEE
Q 028305           61 VTLQIWDTAGQER-------------FQSLGSAFYRG-ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL  126 (210)
Q Consensus        61 ~~~~i~D~~g~~~-------------~~~~~~~~~~~-~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~il  126 (210)
                      ..+.++||||-..             ...+...|+++ .+++++|+|.+..-.-.....+...+...       +.|+++
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~-------~~rti~  197 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQ-------GERTIG  197 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHc-------CCcEEE
Confidence            4689999999532             12234556664 45888999876532222222233333221       679999


Q ss_pred             EEecCCCCCC
Q 028305          127 LGNKIDTDGG  136 (210)
Q Consensus       127 v~~K~D~~~~  136 (210)
                      |+||.|..+.
T Consensus       198 ViTK~D~~~~  207 (240)
T smart00053      198 VITKLDLMDE  207 (240)
T ss_pred             EEECCCCCCc
Confidence            9999998753

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=99.14  E-value=4.3e-10  Score=83.76  Aligned_cols=58  Identities=17%  Similarity=-0.026  Sum_probs=40.8

Q ss_pred             CCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       121 ~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ..+-++|+||+|+.+..... .......+....+..+++++|+++|.|++++++||.+.
T Consensus       230 ~~ADIVVLNKiDLl~~~~~d-le~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFD-VEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHH-HHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            44789999999997531111 12222333333456889999999999999999999774

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=99.13  E-value=7.3e-10  Score=84.02  Aligned_cols=160  Identities=19%  Similarity=0.127  Sum_probs=102.0

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc--------------cceeeeEEEEEEEEeCCe--------------
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY--------------KATIGADFVTKELQMDDK--------------   59 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~--------------   59 (210)
                      ..+..+.|.+.|+.+.|||||+..|..+...+..              ..+.+.+.....+-+++.              
T Consensus       113 ~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~  192 (527)
T COG5258         113 EAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEK  192 (527)
T ss_pred             CCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHH
Confidence            3567899999999999999999988866554221              112222333333333222              


Q ss_pred             -------EEEEEEEeCCCccccccccccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           60 -------LVTLQIWDTAGQERFQSLGSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        60 -------~~~~~i~D~~g~~~~~~~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                             ..-+.+.||.|++.|......-  -...|..++++.+++..+-..-+.+ ..+...       ..|++++.||
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~tkEHL-gi~~a~-------~lPviVvvTK  264 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMTKEHL-GIALAM-------ELPVIVVVTK  264 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhhhHhh-hhhhhh-------cCCEEEEEEe
Confidence                   1347889999999876555333  3568999999999886554332222 222111       7799999999


Q ss_pred             CCCCCCCCcccchHHHHHHHHHc------------------------CCCcEEEecCCCCCChHHHHHH
Q 028305          131 IDTDGGSSRVVPQKKALEWCAYR------------------------GNIPYFETSAKEDCNIDEAFLC  175 (210)
Q Consensus       131 ~D~~~~~~~~~~~~~~~~~~~~~------------------------~~~~~~~~Sa~~~~~v~~~~~~  175 (210)
                      +|+.+++..+...+++....+..                        +-++++.+|+-+|+|++-+.+.
T Consensus       265 ~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~  333 (527)
T COG5258         265 IDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEF  333 (527)
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHH
Confidence            99987654443344443333322                        1367999999999997644433

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=99.08  E-value=2.1e-09  Score=80.28  Aligned_cols=183  Identities=15%  Similarity=0.084  Sum_probs=120.3

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhh----C---c---CC----CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVY----N---K---FS----QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~----~---~---~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      .++.+..+|.-+|+..-|||||--++..    .   .   |.    .......++.+...++.+......+--.|+|||.
T Consensus        49 ~R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHA  128 (449)
T KOG0460|consen   49 VRDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHA  128 (449)
T ss_pred             ccCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchH
Confidence            3567889999999999999999877651    1   1   11    1112233455555666655555556667999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCC-CEEEEEecCCCC-CCCCcccchHHHHHHH
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC-PFVLLGNKIDTD-GGSSRVVPQKKALEWC  150 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~-p~ilv~~K~D~~-~~~~~~~~~~~~~~~~  150 (210)
                      +|-.....-..+.|+.|+|+..+|..--+.-+..  .+.+..      ++ .+++++||.|+. +.+..+..+.++++++
T Consensus       129 DYIKNMItGaaqMDGaILVVaatDG~MPQTrEHl--LLArQV------GV~~ivvfiNKvD~V~d~e~leLVEmE~RElL  200 (449)
T KOG0460|consen  129 DYIKNMITGAAQMDGAILVVAATDGPMPQTREHL--LLARQV------GVKHIVVFINKVDLVDDPEMLELVEMEIRELL  200 (449)
T ss_pred             HHHHHhhcCccccCceEEEEEcCCCCCcchHHHH--HHHHHc------CCceEEEEEecccccCCHHHHHHHHHHHHHHH
Confidence            9988888888889999999999985432222221  111211      22 588999999998 4444667777889999


Q ss_pred             HHcC----CCcEEEecC---CCCCChH---HHHHHHHHHHHhcccccccCCCCCcce
Q 028305          151 AYRG----NIPYFETSA---KEDCNID---EAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       151 ~~~~----~~~~~~~Sa---~~~~~v~---~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      ..++    +.+++.-||   .+|.+-+   +....|.+++..+.+..+.....+.-.
T Consensus       201 se~gf~Gd~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~P~R~~~~pFl~  257 (449)
T KOG0460|consen  201 SEFGFDGDNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPTPERDLDKPFLL  257 (449)
T ss_pred             HHcCCCCCCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCCcccccCCCcee
Confidence            8887    567888776   4453322   456666677766666544444443333

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.05  E-value=4.5e-09  Score=77.51  Aligned_cols=107  Identities=17%  Similarity=0.119  Sum_probs=66.0

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV  140 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~  140 (210)
                      +.+.|++|.|-.   +.--.....+|.++++.-..-.+..+.++.   -+.         .+--++|+||.|....   +
T Consensus       144 ~DvIIVETVGvG---Qsev~I~~~aDt~~~v~~pg~GD~~Q~iK~---Gim---------EiaDi~vINKaD~~~A---~  205 (323)
T COG1703         144 YDVIIVETVGVG---QSEVDIANMADTFLVVMIPGAGDDLQGIKA---GIM---------EIADIIVINKADRKGA---E  205 (323)
T ss_pred             CCEEEEEecCCC---cchhHHhhhcceEEEEecCCCCcHHHHHHh---hhh---------hhhheeeEeccChhhH---H
Confidence            457888887732   112234556899888876554444444433   232         2245899999996543   1


Q ss_pred             cchHHHHHHHH--------HcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          141 VPQKKALEWCA--------YRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       141 ~~~~~~~~~~~--------~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ....+.....+        .....+++.+||.+|+|++++++.+.+...-...
T Consensus       206 ~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~  258 (323)
T COG1703         206 KAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTE  258 (323)
T ss_pred             HHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHh
Confidence            22222222111        1225779999999999999999999887654444

>cd01855 YqeH YqeH

Probab=99.02  E-value=2.2e-09  Score=76.38  Aligned_cols=95  Identities=21%  Similarity=0.165  Sum_probs=64.2

Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH---
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC---  150 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~---  150 (210)
                      +...+..+++.+|++++|+|++++..     .|...+....     .+.|+++|+||+|+.+..   ...+....+.   
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-----~~~~~ilV~NK~Dl~~~~---~~~~~~~~~~~~~   90 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-----GNNPVILVGNKIDLLPKD---KNLVRIKNWLRAK   90 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-----CCCcEEEEEEchhcCCCC---CCHHHHHHHHHHH
Confidence            56777888999999999999987542     1222221111     167999999999996532   2222222222   


Q ss_pred             --HHcC--CCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          151 --AYRG--NIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       151 --~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                        ...+  ...++++||++|.|++++++.|.+.+.
T Consensus        91 ~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          91 AAAGLGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             HHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence              2222  136899999999999999999988764

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.

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=99.01  E-value=1.2e-09  Score=79.48  Aligned_cols=158  Identities=17%  Similarity=0.187  Sum_probs=92.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccc-eeeeEEEEEEEEeCCeEEEEEEEeCCC----------ccccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA-TIGADFVTKELQMDDKLVTLQIWDTAG----------QERFQSL   77 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~   77 (210)
                      +....+++++|..|+|||+|++.++.......... ..+.......+.+   +..+.+.|.||          ..++...
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v---~~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV---GKSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec---cceEEEEecCCcccccCCccCcchHhHh
Confidence            46679999999999999999999885543322111 2222222333333   24588889999          2234444


Q ss_pred             ccccccCCc---EEEEEEECCCh-hhHH-HHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC--cccchHHHHHHH
Q 028305           78 GSAFYRGAD---CCVLVYDVNVQ-KTFE-SLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS--RVVPQKKALEWC  150 (210)
Q Consensus        78 ~~~~~~~~d---~vi~v~d~~~~-~s~~-~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~--~~~~~~~~~~~~  150 (210)
                      ...|+.+-+   -+.+.+|.+-+ ...+ ....|..+-          ++|+.+|.||+|......  .......+....
T Consensus       210 t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~----------~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f  279 (320)
T KOG2486|consen  210 TKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGEN----------NVPMTSVFTKCDKQKKVKRTGKKPGLNIKINF  279 (320)
T ss_pred             HHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhc----------CCCeEEeeehhhhhhhccccccCccccceeeh
Confidence            444543322   34445555533 1112 223444443          899999999999754322  122222222211


Q ss_pred             HHcC------CCcEEEecCCCCCChHHHHHHHHHH
Q 028305          151 AYRG------NIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       151 ~~~~------~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +...      ..+++.+|+.++.|+++++-.+.+.
T Consensus       280 ~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  280 QGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             hhccccceeccCCceeeecccccCceeeeeehhhh
Confidence            1111      2567889999999999998887764

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=6e-09  Score=74.45  Aligned_cols=168  Identities=18%  Similarity=0.268  Sum_probs=102.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc---cccccCCcEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG---SAFYRGADCCV   89 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~---~~~~~~~d~vi   89 (210)
                      .+|++.|..-+||||+..-......+.+..-...+..... -++.+.-+.+.+||.||+..+..-.   +..++.+.++|
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTski~~-d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALi  106 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTSKITR-DHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALI  106 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccCCCceeEeeccCcccH-hhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEE
Confidence            4599999999999998776554443322111111111011 1222345789999999988765443   45578899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cC----CCcEEEe
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RG----NIPYFET  161 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~----~~~~~~~  161 (210)
                      +|+|..+ +..+.+......+.+....+  .++.+-+.++|.|..+++.+......+.+....    .+    .+.++.+
T Consensus       107 fvIDaQd-dy~eala~L~~~v~raykvN--p~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LT  183 (347)
T KOG3887|consen  107 FVIDAQD-DYMEALARLHMTVERAYKVN--PNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLT  183 (347)
T ss_pred             EEEechH-HHHHHHHHHHHHhhheeecC--CCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEe
Confidence            9999864 23334444444444433332  277888999999987765444333333332221    11    2446666


Q ss_pred             cCCCCCChHHHHHHHHHHHHhccc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |-. ...+-|+|..+++++....+
T Consensus       184 SIy-DHSIfEAFSkvVQkLipqLp  206 (347)
T KOG3887|consen  184 SIY-DHSIFEAFSKVVQKLIPQLP  206 (347)
T ss_pred             eec-chHHHHHHHHHHHHHhhhch
Confidence            654 56899999999999876654

>cd01859 MJ1464 MJ1464

Probab=98.96  E-value=4.4e-09  Score=72.43  Aligned_cols=95  Identities=21%  Similarity=0.123  Sum_probs=62.6

Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG  154 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~  154 (210)
                      +.+....++++|++++|+|++++...... .+...+..       .+.|+++|+||+|+.+.  ..  ......+....+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~~-~l~~~~~~-------~~~p~iiv~NK~Dl~~~--~~--~~~~~~~~~~~~   70 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRSR-KLERYVLE-------LGKKLLIVLNKADLVPK--EV--LEKWKSIKESEG   70 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCCH-HHHHHHHh-------CCCcEEEEEEhHHhCCH--HH--HHHHHHHHHhCC
Confidence            34556677789999999999876432221 11111211       15799999999998542  11  111112333333


Q ss_pred             CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          155 NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       155 ~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                       .+++++||+++.|++++++.+.+.+..
T Consensus        71 -~~~~~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          71 -IPVVYVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             -CcEEEEEccccccHHHHHHHHHHHHhh
Confidence             679999999999999999999887753

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.94  E-value=9.4e-09  Score=79.38  Aligned_cols=89  Identities=15%  Similarity=0.035  Sum_probs=64.0

Q ss_pred             cccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           79 SAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...++++|.+++|+|+.++. ....+..|+.....       .++|+++|+||+|+...  . . .+.........+ +.
T Consensus        84 R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~-------~~ip~ILVlNK~DLv~~--~-~-~~~~~~~~~~~g-~~  151 (352)
T PRK12289         84 RPPVANADQILLVFALAEPPLDPWQLSRFLVKAES-------TGLEIVLCLNKADLVSP--T-E-QQQWQDRLQQWG-YQ  151 (352)
T ss_pred             chhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH-------CCCCEEEEEEchhcCCh--H-H-HHHHHHHHHhcC-Ce
Confidence            44578999999999998775 44455666655432       17899999999999642  1 1 122233334555 78


Q ss_pred             EEEecCCCCCChHHHHHHHHHH
Q 028305          158 YFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ++++||+++.|++++++.+...
T Consensus       152 v~~iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        152 PLFISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEEEEcCCCCCHHHHhhhhccc
Confidence            9999999999999999988654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.93  E-value=8.6e-09  Score=77.89  Aligned_cols=88  Identities=18%  Similarity=0.084  Sum_probs=66.2

Q ss_pred             cccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           79 SAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...+.++|.+++|+|+.++. ++..+..|+..+...       ++|+++|+||+|+.+.  .  ............+ .+
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~-------~ip~iIVlNK~DL~~~--~--~~~~~~~~~~~~g-~~  140 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA-------GIEPVIVLTKADLLDD--E--EEELELVEALALG-YP  140 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc-------CCCEEEEEEHHHCCCh--H--HHHHHHHHHHhCC-Ce
Confidence            44578899999999999887 778888887766532       6799999999999653  1  1112222333445 78


Q ss_pred             EEEecCCCCCChHHHHHHHHH
Q 028305          158 YFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      ++++||+++.|+++++..|..
T Consensus       141 v~~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         141 VLAVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             EEEEECCCCccHHHHHhhhcc
Confidence            999999999999999988764

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=98.92  E-value=7.9e-09  Score=78.50  Aligned_cols=87  Identities=22%  Similarity=0.143  Sum_probs=63.3

Q ss_pred             cccCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~-~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+.++|.+++|+|+.++..... +..|+..+...       ++|+++|+||+|+.+.  .. ..++.....+..+ .+++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~~-------~ip~iIVlNK~DL~~~--~~-~~~~~~~~~~~~g-~~v~  145 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEAN-------GIKPIIVLNKIDLLDD--LE-EARELLALYRAIG-YDVL  145 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHHC-------CCCEEEEEEhHHcCCC--HH-HHHHHHHHHHHCC-CeEE
Confidence            4688999999999988866544 45666555431       7799999999999632  22 1223344445555 7899


Q ss_pred             EecCCCCCChHHHHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~  178 (210)
                      ++||+++.|++++++.+..
T Consensus       146 ~vSA~~g~gi~~L~~~l~g  164 (298)
T PRK00098        146 ELSAKEGEGLDELKPLLAG  164 (298)
T ss_pred             EEeCCCCccHHHHHhhccC
Confidence            9999999999999988753

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.91  E-value=1.4e-08  Score=77.05  Aligned_cols=155  Identities=19%  Similarity=0.240  Sum_probs=95.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccc-----------------------eeeeEEEEEEEEe----------C
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA-----------------------TIGADFVTKELQM----------D   57 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-----------------------~~~~~~~~~~~~~----------~   57 (210)
                      ..++++|+|...+|||||+.-|..+......-.                       ..+.+-.-..+++          +
T Consensus       166 ievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e  245 (591)
T KOG1143|consen  166 IEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVE  245 (591)
T ss_pred             eEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHh
Confidence            578999999999999999987775544311100                       0011111111111          1


Q ss_pred             CeEEEEEEEeCCCcccccccccccccC--CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRG--ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~--~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .....+.++|.+|+.+|.......+..  .|..+++++++....+..-+.. ..+...       ++|++++++|+|+.+
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tTrEHL-gl~~AL-------~iPfFvlvtK~Dl~~  317 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTTREHL-GLIAAL-------NIPFFVLVTKMDLVD  317 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccccHHHH-HHHHHh-------CCCeEEEEEeecccc
Confidence            112358899999999988776555443  5899999999877665543322 222211       889999999999976


Q ss_pred             CCC----------------------cccchHHHHHHHHHc---CCCcEEEecCCCCCChHHHH
Q 028305          136 GSS----------------------RVVPQKKALEWCAYR---GNIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus       136 ~~~----------------------~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~v~~~~  173 (210)
                      ...                      +....++.-..++..   +.++++.+|+..|+|++-+.
T Consensus       318 ~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~  380 (591)
T KOG1143|consen  318 RQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLR  380 (591)
T ss_pred             chhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHH
Confidence            531                      122333333333322   35779999999999987443

>PRK12288 GTPase RsgA; Reviewed

Probab=98.91  E-value=1.4e-08  Score=78.38  Aligned_cols=89  Identities=15%  Similarity=0.096  Sum_probs=66.2

Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ..++|.+++|+++....++..+..|+.....       .++|.++|+||+|+.+...... ........+..+ .+++++
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~-------~~i~~VIVlNK~DL~~~~~~~~-~~~~~~~y~~~g-~~v~~v  188 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET-------LGIEPLIVLNKIDLLDDEGRAF-VNEQLDIYRNIG-YRVLMV  188 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh-------cCCCEEEEEECccCCCcHHHHH-HHHHHHHHHhCC-CeEEEE
Confidence            5679999999999888889889888765532       1679999999999975321111 122223334455 789999


Q ss_pred             cCCCCCChHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~  179 (210)
                      ||+++.|++++++.|...
T Consensus       189 SA~tg~GideL~~~L~~k  206 (347)
T PRK12288        189 SSHTGEGLEELEAALTGR  206 (347)
T ss_pred             eCCCCcCHHHHHHHHhhC
Confidence            999999999999998753

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.85  E-value=6.6e-09  Score=70.33  Aligned_cols=53  Identities=23%  Similarity=0.287  Sum_probs=36.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      +++++|.+|+|||||+|++.+..... ...++.+..  ...+.+++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~--~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKH--FQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccc--eEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999776532 122223222  23344443   4789999995

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.82  E-value=8.9e-09  Score=71.81  Aligned_cols=56  Identities=23%  Similarity=0.401  Sum_probs=39.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ...++++|+|.||+|||||+|+|.+... .....++++....  .+..+.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~--~~~~~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQ--EVHLDK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceE--EEEeCC---CEEEEECcC
Confidence            3458999999999999999999997654 3344455544333  233322   478999998

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.82  E-value=2e-08  Score=78.20  Aligned_cols=99  Identities=21%  Similarity=0.157  Sum_probs=68.9

Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALEW  149 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~~  149 (210)
                      .+++..+...+...++++++|+|+.+..     ..|...+.+...     +.|+++|+||+|+.+... .....+.++++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~-----~~piilV~NK~DLl~k~~~~~~~~~~l~~~  119 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVG-----GNPVLLVGNKIDLLPKSVNLSKIKEWMKKR  119 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhC-----CCCEEEEEEchhhCCCCCCHHHHHHHHHHH
Confidence            4567777888888999999999997653     234444444432     569999999999965321 11222233344


Q ss_pred             HHHcCC--CcEEEecCCCCCChHHHHHHHHHH
Q 028305          150 CAYRGN--IPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       150 ~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ++..+.  ..++.+||++|.|++++++.+.+.
T Consensus       120 ~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       120 AKELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            555552  258999999999999999999764

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.81  E-value=2.8e-08  Score=75.30  Aligned_cols=119  Identities=15%  Similarity=0.186  Sum_probs=76.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-cceeeeEEEEEEEEeCCeE-----------------------------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-KATIGADFVTKELQMDDKL-----------------------------   60 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-----------------------------   60 (210)
                      ...-|+++|+-..||||||+.|+...++... -+..+++.....+..+.+.                             
T Consensus        57 ~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf  136 (532)
T KOG1954|consen   57 AKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRF  136 (532)
T ss_pred             cCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHH
Confidence            4456999999999999999999988887432 2223334444444432221                             


Q ss_pred             ----------EEEEEEeCCCcc-----------cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCC
Q 028305           61 ----------VTLQIWDTAGQE-----------RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEH  119 (210)
Q Consensus        61 ----------~~~~i~D~~g~~-----------~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~  119 (210)
                                -.+.++||||.-           +|.....=++..+|.++++||...-+--++....+..+..+      
T Consensus       137 ~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~------  210 (532)
T KOG1954|consen  137 MCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH------  210 (532)
T ss_pred             HHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC------
Confidence                      148999999921           12233344567899999999976543333334444444332      


Q ss_pred             CCCCEEEEEecCCCCCC
Q 028305          120 EACPFVLLGNKIDTDGG  136 (210)
Q Consensus       120 ~~~p~ilv~~K~D~~~~  136 (210)
                       .=.+-+|.||+|..+.
T Consensus       211 -EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  211 -EDKIRVVLNKADQVDT  226 (532)
T ss_pred             -cceeEEEeccccccCH
Confidence             1257789999998654

>cd01858 NGP_1 NGP-1

Probab=98.78  E-value=2.5e-08  Score=68.75  Aligned_cols=55  Identities=18%  Similarity=0.235  Sum_probs=36.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ..++|+++|.||+|||||+|+|.+.... ....++.+...  ..+....   .+.++||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~--~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVW--QYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeE--EEEEcCC---CEEEEECcC
Confidence            4678999999999999999999976543 22333333332  2222222   267889998

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.

>cd01856 YlqF YlqF

Probab=98.75  E-value=3.1e-08  Score=69.27  Aligned_cols=57  Identities=21%  Similarity=0.337  Sum_probs=39.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ...++++++|.+|+|||||+|++.+..+. ....++++...  ..+.++   ..+.+|||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~--~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGI--QWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeee--EEEEec---CCEEEEECCCC
Confidence            45589999999999999999999987653 22223333333  333333   34789999994

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.

>cd01855 YqeH YqeH

Probab=98.73  E-value=2.1e-08  Score=71.36  Aligned_cols=54  Identities=22%  Similarity=0.389  Sum_probs=37.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcC---------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKF---------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ..+++++|.+|+|||||+|+|.+...         .....++++.+..  .+..+.   .+.++||||
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~--~~~~~~---~~~~~DtPG  189 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLI--KIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeE--EEecCC---CCEEEeCcC
Confidence            35899999999999999999997432         2234444444443  333332   378999999

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.73  E-value=4.1e-07  Score=72.79  Aligned_cols=154  Identities=16%  Similarity=0.172  Sum_probs=91.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ..+++|-|+|+||||+||||||++|...-.. +....+    .-....+.+....++++.+|..  .. ......+-+|.
T Consensus        65 d~PPPfIvavvGPpGtGKsTLirSlVrr~tk-~ti~~i----~GPiTvvsgK~RRiTflEcp~D--l~-~miDvaKIaDL  136 (1077)
T COG5192          65 DLPPPFIVAVVGPPGTGKSTLIRSLVRRFTK-QTIDEI----RGPITVVSGKTRRITFLECPSD--LH-QMIDVAKIADL  136 (1077)
T ss_pred             cCCCCeEEEeecCCCCChhHHHHHHHHHHHH-hhhhcc----CCceEEeecceeEEEEEeChHH--HH-HHHhHHHhhhe
Confidence            4568999999999999999999988743211 111111    0011123456678999999942  22 23344567899


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCCcccchHHHHH------HHHHcCCCcEEE
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSSRVVPQKKALE------WCAYRGNIPYFE  160 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~~~~~~~~~~~------~~~~~~~~~~~~  160 (210)
                      |++.+|.+-.-..+.+ .+++.+..+       ++| ++-|++..|+....   .....++.      +..-+....+|.
T Consensus       137 VlLlIdgnfGfEMETm-EFLnil~~H-------GmPrvlgV~ThlDlfk~~---stLr~~KKrlkhRfWtEiyqGaKlFy  205 (1077)
T COG5192         137 VLLLIDGNFGFEMETM-EFLNILISH-------GMPRVLGVVTHLDLFKNP---STLRSIKKRLKHRFWTEIYQGAKLFY  205 (1077)
T ss_pred             eEEEeccccCceehHH-HHHHHHhhc-------CCCceEEEEeecccccCh---HHHHHHHHHHhhhHHHHHcCCceEEE
Confidence            9999998754333332 445555554       444 77899999996532   12222222      223334577888


Q ss_pred             ecCC-CCCChHHHHHHHHHHH
Q 028305          161 TSAK-EDCNIDEAFLCVAEIA  180 (210)
Q Consensus       161 ~Sa~-~~~~v~~~~~~l~~~~  180 (210)
                      +|.. +|.--+.-+-.|.+.+
T Consensus       206 lsgV~nGRYpDreilnLsRfi  226 (1077)
T COG5192         206 LSGVENGRYPDREILNLSRFI  226 (1077)
T ss_pred             ecccccCCCCCHHHHHHHHHH
Confidence            8864 4555444444454443

>cd01858 NGP_1 NGP-1

Probab=98.72  E-value=7.4e-08  Score=66.41  Aligned_cols=92  Identities=12%  Similarity=0.031  Sum_probs=57.9

Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      ..++.+|++++|+|++++..-.. ..+...+... .    .+.|+++|+||+|+.+.   .........+.+... ..++
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~-~~i~~~l~~~-~----~~~p~ilVlNKiDl~~~---~~~~~~~~~~~~~~~-~~~~   73 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRC-KHVEEYLKKE-K----PHKHLIFVLNKCDLVPT---WVTARWVKILSKEYP-TIAF   73 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccC-HHHHHHHHhc-c----CCCCEEEEEEchhcCCH---HHHHHHHHHHhcCCc-EEEE
Confidence            34678999999999998732211 1222222221 1    15799999999999642   112222333322222 3368


Q ss_pred             EecCCCCCChHHHHHHHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .+||+++.|++++++.+.+.+.
T Consensus        74 ~iSa~~~~~~~~L~~~l~~~~~   95 (157)
T cd01858          74 HASINNPFGKGSLIQLLRQFSK   95 (157)
T ss_pred             EeeccccccHHHHHHHHHHHHh
Confidence            8999999999999999977643

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.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.71  E-value=1.1e-07  Score=72.40  Aligned_cols=158  Identities=16%  Similarity=0.155  Sum_probs=89.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEE--------------------E
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFV--------------------T   51 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~--------------------~   51 (210)
                      -..++|+|+|...+|||||+.-|..+...                  .......+.++.                    .
T Consensus       131 F~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdW  210 (641)
T KOG0463|consen  131 FIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDW  210 (641)
T ss_pred             ceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCcccc
Confidence            35789999999999999999665533322                  011111111110                    0


Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccccccc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           52 KELQMDDKLVTLQIWDTAGQERFQSLGSAFY--RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                      ..+. ++....+.|+|.+|+++|...+-..+  +..|..++++-.+...--.. ...+...       ....+|+++|++
T Consensus       211 vkIc-e~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIiGmT-KEHLgLA-------LaL~VPVfvVVT  281 (641)
T KOG0463|consen  211 VKIC-EDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGIIGMT-KEHLGLA-------LALHVPVFVVVT  281 (641)
T ss_pred             eeec-cccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccceecc-HHhhhhh-------hhhcCcEEEEEE
Confidence            1111 11123588999999998876553332  34577777776553211111 1111111       112789999999


Q ss_pred             cCCCCCCCCcccchHHHHHHHHHcC-------------------------CCcEEEecCCCCCChHHHHHHH
Q 028305          130 KIDTDGGSSRVVPQKKALEWCAYRG-------------------------NIPYFETSAKEDCNIDEAFLCV  176 (210)
Q Consensus       130 K~D~~~~~~~~~~~~~~~~~~~~~~-------------------------~~~~~~~Sa~~~~~v~~~~~~l  176 (210)
                      |+|+......+.....+..+.+..+                         -+++|.+|..+|.|+.-+...|
T Consensus       282 KIDMCPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmFL  353 (641)
T KOG0463|consen  282 KIDMCPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMFL  353 (641)
T ss_pred             eeccCcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHHH
Confidence            9999875433344444444443321                         2568999999999987555444

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.68  E-value=3e-07  Score=67.05  Aligned_cols=88  Identities=16%  Similarity=0.080  Sum_probs=54.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC--cCCCcc---cceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN--KFSQQY---KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL------   77 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------   77 (210)
                      ..+..-|+|+|++++|||+|+|+|++.  .+....   ..|.++-....... .+....+.++||+|.......      
T Consensus         4 ~~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~-~~~~~~v~~lDteG~~~~~~~~~~~~~   82 (224)
T cd01851           4 GFPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFK-LGKEHAVLLLDTEGTDGRERGEFEDDA   82 (224)
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEecccc-CCCcceEEEEecCCcCccccCchhhhh
Confidence            356678999999999999999999988  554221   22222222221111 123467999999996543221      


Q ss_pred             ccccccC--CcEEEEEEECCCh
Q 028305           78 GSAFYRG--ADCCVLVYDVNVQ   97 (210)
Q Consensus        78 ~~~~~~~--~d~vi~v~d~~~~   97 (210)
                      ....+..  ++++||..+....
T Consensus        83 ~~~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          83 RLFALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHHHhCEEEEeccCccc
Confidence            1222233  7888887776644

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

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.68  E-value=1e-07  Score=78.17  Aligned_cols=120  Identities=21%  Similarity=0.240  Sum_probs=82.4

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcC--C----------C--cccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKF--S----------Q--QYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~--~----------~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ++......+++++-+..-|||||..+|+...-  +          +  ....+.+++.....+..-...+.++++|+|||
T Consensus         3 ~~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspgh   82 (887)
T KOG0467|consen    3 QKGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGH   82 (887)
T ss_pred             CCCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCc
Confidence            34556788999999999999999999873221  1          1  11223344444444455445688999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      .+|.+......+-+|++++.+|+...---....-..+.+..        +...++|+||+|.
T Consensus        83 vdf~sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~--------~~~~~lvinkidr  136 (887)
T KOG0467|consen   83 VDFSSEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIE--------GLKPILVINKIDR  136 (887)
T ss_pred             cchhhhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHc--------cCceEEEEehhhh
Confidence            99999999999999999999998764322221111111211        5578999999994

>cd01859 MJ1464 MJ1464

Probab=98.67  E-value=8.1e-08  Score=66.13  Aligned_cols=57  Identities=23%  Similarity=0.244  Sum_probs=37.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ....+++++|.+|+|||||++++.+.... ...++.+.......+..++   .+.+|||||
T Consensus        99 ~~~~~~~~ig~~~~Gkssl~~~l~~~~~~-~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859          99 GKEGKVGVVGYPNVGKSSIINALKGRHSA-STSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            35678999999999999999999965432 2223333332222222322   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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.66  E-value=1e-07  Score=72.16  Aligned_cols=58  Identities=19%  Similarity=0.353  Sum_probs=41.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      ...++++|+|.||+|||||+|+|.+... .....++.+....  .+..+.   .+.++||||-.
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQ--WIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEE--EEEeCC---cEEEEECCCcC
Confidence            4568999999999999999999997664 3334445544432  333332   37899999953

>TIGR00092 GTP-binding protein YchF

Probab=98.65  E-value=8.3e-08  Score=74.05  Aligned_cols=83  Identities=18%  Similarity=0.026  Sum_probs=58.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCccc---
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQER---   73 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~---   73 (210)
                      +++.++|.|++|||||.+.|.+... .....|..+.+.....+.+.+.               ...+.+.|.||-..   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999998776 4333355545555555555432               23578889999332   


Q ss_pred             ----ccccccccccCCcEEEEEEECC
Q 028305           74 ----FQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        74 ----~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                          ........++.+|++++|++..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2223344578899999999985

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.65  E-value=3.8e-06  Score=56.73  Aligned_cols=148  Identities=19%  Similarity=0.256  Sum_probs=76.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCC-Cccc--------------c
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA-GQER--------------F   74 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-g~~~--------------~   74 (210)
                      ...++|.+.|+||+||||++.++...--...+.-   -.+....+.-++...-+.+.|+. |...              |
T Consensus         3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kv---gGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY   79 (179)
T COG1618           3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKGYKV---GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKY   79 (179)
T ss_pred             CcceEEEEeCCCCccHHHHHHHHHHHHHhcCcee---eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceE
Confidence            4578999999999999999999874322211111   12333444455555666666665 3110              0


Q ss_pred             -------c----ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccch
Q 028305           75 -------Q----SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQ  143 (210)
Q Consensus        75 -------~----~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~  143 (210)
                             .    ......++.+|++  ++|---|--+. ...+...+...+..    ..|++.++++.+..+        
T Consensus        80 ~V~v~~le~i~~~al~rA~~~aDvI--IIDEIGpMElk-s~~f~~~ve~vl~~----~kpliatlHrrsr~P--------  144 (179)
T COG1618          80 GVNVEGLEEIAIPALRRALEEADVI--IIDEIGPMELK-SKKFREAVEEVLKS----GKPLIATLHRRSRHP--------  144 (179)
T ss_pred             EeeHHHHHHHhHHHHHHHhhcCCEE--EEecccchhhc-cHHHHHHHHHHhcC----CCcEEEEEecccCCh--------
Confidence                   0    1112223446744  45544332111 23445555554443    678888888776421        


Q ss_pred             HHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          144 KKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                        ..+..+..+.+.++    .+.+|-+.++..+...+-
T Consensus       145 --~v~~ik~~~~v~v~----lt~~NR~~i~~~Il~~L~  176 (179)
T COG1618         145 --LVQRIKKLGGVYVF----LTPENRNRILNEILSVLK  176 (179)
T ss_pred             --HHHHhhhcCCEEEE----EccchhhHHHHHHHHHhc
Confidence              11222333323333    444555577777776553

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.64  E-value=2.8e-07  Score=63.38  Aligned_cols=84  Identities=19%  Similarity=0.026  Sum_probs=54.7

Q ss_pred             cEEEEEEECCChhhHHHHHHHHH-HHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWRE-EFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~-~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      |++++|+|+.++.+....  ++. ....  .    .+.|+++|+||+|+.+.   ....+....+... ....++.+||+
T Consensus         1 Dvvl~VvD~~~p~~~~~~--~i~~~~~~--~----~~~p~IiVlNK~Dl~~~---~~~~~~~~~~~~~-~~~~ii~vSa~   68 (155)
T cd01849           1 DVILEVLDARDPLGTRSP--DIERVLIK--E----KGKKLILVLNKADLVPK---EVLRKWLAYLRHS-YPTIPFKISAT   68 (155)
T ss_pred             CEEEEEEeccCCccccCH--HHHHHHHh--c----CCCCEEEEEechhcCCH---HHHHHHHHHHHhh-CCceEEEEecc
Confidence            689999999887554421  222 1111  1    16799999999999642   1111112223222 23678999999


Q ss_pred             CCCChHHHHHHHHHHHH
Q 028305          165 EDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~  181 (210)
                      +|.|++++++.+.+...
T Consensus        69 ~~~gi~~L~~~i~~~~~   85 (155)
T cd01849          69 NGQGIEKKESAFTKQTN   85 (155)
T ss_pred             CCcChhhHHHHHHHHhH
Confidence            99999999999987654

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.

>cd01856 YlqF YlqF

Probab=98.63  E-value=1.4e-07  Score=65.97  Aligned_cols=99  Identities=14%  Similarity=0.111  Sum_probs=63.9

Q ss_pred             CCCcc-cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH
Q 028305           68 TAGQE-RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA  146 (210)
Q Consensus        68 ~~g~~-~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~  146 (210)
                      .||+. +........++++|.+++|+|++++...... .+...+    .     +.|+++|+||+|+.+.  . . ....
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~----~-----~k~~ilVlNK~Dl~~~--~-~-~~~~   67 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL----G-----NKPRIIVLNKADLADP--K-K-TKKW   67 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh----c-----CCCEEEEEehhhcCCh--H-H-HHHH
Confidence            35543 2344456678899999999999876432221 111111    1     4689999999999642  1 1 1112


Q ss_pred             HHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          147 LEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       147 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .+..+... ..++.+|++++.|++++.+.+.+.+.
T Consensus        68 ~~~~~~~~-~~vi~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          68 LKYFESKG-EKVLFVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             HHHHHhcC-CeEEEEECCCcccHHHHHHHHHHHHH
Confidence            12223333 56899999999999999999988764

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.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.63  E-value=1.2e-07  Score=75.99  Aligned_cols=118  Identities=19%  Similarity=0.195  Sum_probs=80.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ...-+|.+.-.-.+||||+-.+.+...-.                  .....  ++..........-..+.++++|||||
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~r--gITiqSAAt~~~w~~~~iNiIDTPGH  114 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQR--GITIQSAATYFTWRDYRINIIDTPGH  114 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhc--CceeeeceeeeeeccceeEEecCCCc
Confidence            45678888889999999999987622111                  00111  22222233333333678999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      -+|.-..+..++--|+.+++++....-.-... ..+.++.++       ++|.+.++||.|.....
T Consensus       115 vDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~-tV~rQ~~ry-------~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  115 VDFTFEVERALRVLDGAVLVLDAVAGVESQTE-TVWRQMKRY-------NVPRICFINKMDRMGAS  172 (721)
T ss_pred             eeEEEEehhhhhhccCeEEEEEcccceehhhH-HHHHHHHhc-------CCCeEEEEehhhhcCCC
Confidence            99999999999999999999988754322222 233444444       88999999999986543

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.63  E-value=1.2e-07  Score=71.42  Aligned_cols=57  Identities=21%  Similarity=0.409  Sum_probs=39.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ...++++++|.||+|||||+|+|.+.... ....++++...  ..+....   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~--~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQ--QWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecce--EEEEeCC---CEEEEECCCc
Confidence            35689999999999999999999976533 23334443333  2333322   3789999996

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.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.62  E-value=2.9e-08  Score=73.40  Aligned_cols=179  Identities=18%  Similarity=0.185  Sum_probs=110.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCc---CCCcccceeeeEEEEEEE---EeCCe----------------------
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNK---FSQQYKATIGADFVTKEL---QMDDK----------------------   59 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~---~~~~~----------------------   59 (210)
                      +.+.+++|.-+|+..-||||++.++.+-.   |..+....+++...+...   ..++.                      
T Consensus        34 sRQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~  113 (466)
T KOG0466|consen   34 SRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCD  113 (466)
T ss_pred             hheeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcc
Confidence            35789999999999999999998876332   111111111111110000   00000                      


Q ss_pred             ----------EEEEEEEeCCCcccccccccccccCCcEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCCCCCCEE
Q 028305           60 ----------LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----KTFESLQNWREEFLKQADPGEHEACPFV  125 (210)
Q Consensus        60 ----------~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~~~~~~p~i  125 (210)
                                -..+.+.|+||++-..........-.|++++++..+.+    ++-+.+..  -++.+.        ..++
T Consensus       114 ~~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaa--veiM~L--------khii  183 (466)
T KOG0466|consen  114 RPGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAA--VEIMKL--------KHII  183 (466)
T ss_pred             cCCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHH--HHHhhh--------ceEE
Confidence                      12477889999997776666666667888888876643    33333221  122211        2589


Q ss_pred             EEEecCCCCCCCCcccchHHHHHHHHHcC--CCcEEEecCCCCCChHHHHHHHHHHHHhcccccccCCCCCcce
Q 028305          126 LLGNKIDTDGGSSRVVPQKKALEWCAYRG--NIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQGISE  197 (210)
Q Consensus       126 lv~~K~D~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~~~~~~~~~~  197 (210)
                      ++-||.|+..+.......+.+..|.+...  ..+++++||.-+.|++-+.+.+..++.-- .++...+|+-+..
T Consensus       184 ilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvP-vRdf~s~prlIVI  256 (466)
T KOG0466|consen  184 ILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP-VRDFTSPPRLIVI  256 (466)
T ss_pred             EEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCC-ccccCCCCcEEEE
Confidence            99999999865444555666666765443  36899999999999999999888877543 3455555554433

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.61  E-value=1.3e-06  Score=71.21  Aligned_cols=119  Identities=21%  Similarity=0.294  Sum_probs=69.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEE----------------------------------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADF----------------------------------------   49 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~----------------------------------------   49 (210)
                      ....||++.|..++||||++|+++.....+......+.-+                                        
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            4678999999999999999999885554322111110000                                        


Q ss_pred             ----EEEEEEeCC-e---EEEEEEEeCCCcc---cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC
Q 028305           50 ----VTKELQMDD-K---LVTLQIWDTAGQE---RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGE  118 (210)
Q Consensus        50 ----~~~~~~~~~-~---~~~~~i~D~~g~~---~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~  118 (210)
                          ..+.+.-++ .   .-.+.++|.||-+   ...+-.......+|++|+|.+..+..+.... +++....+.     
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek-~Ff~~vs~~-----  260 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK-QFFHKVSEE-----  260 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH-HHHHHhhcc-----
Confidence                000000000 0   0136778889833   3333345666789999999998876544432 333333221     


Q ss_pred             CCCCCEEEEEecCCCCCC
Q 028305          119 HEACPFVLLGNKIDTDGG  136 (210)
Q Consensus       119 ~~~~p~ilv~~K~D~~~~  136 (210)
                        ++.++++.||+|....
T Consensus       261 --KpniFIlnnkwDasas  276 (749)
T KOG0448|consen  261 --KPNIFILNNKWDASAS  276 (749)
T ss_pred             --CCcEEEEechhhhhcc
Confidence              4457788889998654

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.61  E-value=3.6e-07  Score=81.24  Aligned_cols=113  Identities=22%  Similarity=0.250  Sum_probs=66.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcc----cc--eeeeEEEEEEEEeCCeEEEEEEEeCCCccc--------ccccccc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQY----KA--TIGADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSA   80 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~----~~--~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~   80 (210)
                      .+|+|++|+||||++++- +-.++-..    ..  +.+.+. .....+.++   ..++||+|.-.        ....+..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-~c~wwf~~~---avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-NCDWWFTDE---AVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-ccceEecCC---EEEEcCCCccccCCCcccccHHHHHH
Confidence            589999999999999875 33333111    00  111011 122223333   55889999221        1222333


Q ss_pred             cc---------cCCcEEEEEEECCChh-----h----HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           81 FY---------RGADCCVLVYDVNVQK-----T----FESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        81 ~~---------~~~d~vi~v~d~~~~~-----s----~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ++         +-.|+||+++|+.+--     .    ...+...+.++...+..    .+||.+|+||+|+...
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~----~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGA----RFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCC----CCCEEEEEecchhhcC
Confidence            32         2369999999987521     1    12334445555555444    8899999999998755

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.61  E-value=5.5e-07  Score=65.29  Aligned_cols=157  Identities=17%  Similarity=0.062  Sum_probs=95.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-------ccccccccccC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-------FQSLGSAFYRG   84 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~   84 (210)
                      ..+|.++|.|.+||||++..+.+.........+++.........+.+  -++++.|.||..+       -........+.
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s~vasyefttl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCCccccccceeEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            35899999999999999999986544332222232333333344444  5688889999322       22334556778


Q ss_pred             CcEEEEEEECCChhhHHHHHH-HHHH-------------------------------------HHHhcCC----------
Q 028305           85 ADCCVLVYDVNVQKTFESLQN-WREE-------------------------------------FLKQADP----------  116 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~-~~~~-------------------------------------l~~~~~~----------  116 (210)
                      ++.+++|.|+..|-+-..+.. -+.-                                     +..+...          
T Consensus       137 cnli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~Da  216 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDA  216 (358)
T ss_pred             ccEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCc
Confidence            999999999886544332211 0000                                     0000000          


Q ss_pred             ----------CCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          117 ----------GEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       117 ----------~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                                .....+|.+.+.||+|-..-       ++..-.   +.....+++||.++-|++++++.+-+.+
T Consensus       217 T~DdLIdvVegnr~yVp~iyvLNkIdsISi-------EELdii---~~iphavpISA~~~wn~d~lL~~mweyL  280 (358)
T KOG1487|consen  217 TADDLIDVVEGNRIYVPCIYVLNKIDSISI-------EELDII---YTIPHAVPISAHTGWNFDKLLEKMWEYL  280 (358)
T ss_pred             chhhhhhhhccCceeeeeeeeecccceeee-------ecccee---eeccceeecccccccchHHHHHHHhhcc
Confidence                      00014688888899886432       222111   2235689999999999999999888765

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.59  E-value=1.2e-07  Score=72.72  Aligned_cols=56  Identities=25%  Similarity=0.411  Sum_probs=40.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ...+++.|+|-||+|||||||+|.+.... ....|+.  +.....+..+..   +.++||||
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~--Tk~~q~i~~~~~---i~LlDtPG  186 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGT--TKGIQWIKLDDG---IYLLDTPG  186 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccceeeCCCCce--ecceEEEEcCCC---eEEecCCC
Confidence            34688999999999999999999977653 2333333  344444444443   88999999

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.58  E-value=2.3e-07  Score=69.63  Aligned_cols=86  Identities=20%  Similarity=0.165  Sum_probs=63.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC---------------CeEEEEEEEeCCCcc--
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD---------------DKLVTLQIWDTAGQE--   72 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~i~D~~g~~--   72 (210)
                      ...+++.+||.|++|||||.|.|..........|..+++.....+.+.               .....++++|.+|.-  
T Consensus        18 ~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491|consen   18 GNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             CCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence            457799999999999999999999887777777777777776655442               224579999998822  


Q ss_pred             -----cccccccccccCCcEEEEEEECC
Q 028305           73 -----RFQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        73 -----~~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                           .+...-..-++.+|+++-|+++.
T Consensus        98 As~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   98 ASAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             cccCcCchHHHHHhhhhccceeEEEEec
Confidence                 22333344467899999988865

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.58  E-value=1.5e-07  Score=64.77  Aligned_cols=56  Identities=21%  Similarity=0.315  Sum_probs=38.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ....+++++|.+|+|||||+|.+.+... .....+.++.....  ...+   ..+.++||||
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~--~~~~---~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQE--VKLD---NKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEE--EEec---CCEEEEECCC
Confidence            4568899999999999999999997653 22333444444332  2222   2478899998

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.

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.56  E-value=2.4e-07  Score=67.76  Aligned_cols=122  Identities=20%  Similarity=0.302  Sum_probs=76.4

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc----cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc-------
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY----KATIGADFVTKELQMDDKLVTLQIWDTAGQERF-------   74 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-------   74 (210)
                      +....-.|+|+.+|..|-|||||+..|++..+...+    .+.+..........-.+..+++.+.||.|..+.       
T Consensus        36 sv~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Sy  115 (406)
T KOG3859|consen   36 SVSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSY  115 (406)
T ss_pred             HHhcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCccccc
Confidence            334556899999999999999999999988876433    333333333344445677889999999993321       


Q ss_pred             cccc-------ccc-------------c--cCCcEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           75 QSLG-------SAF-------------Y--RGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        75 ~~~~-------~~~-------------~--~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      ..+.       +.|             +  ...++.+|.+..+.. ++..+.. ..+.+.+        ++.+|-|+.|.
T Consensus       116 k~iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH-~LKslDLvtmk~Lds--------kVNIIPvIAKa  186 (406)
T KOG3859|consen  116 KPIVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGH-SLKSLDLVTMKKLDS--------KVNIIPVIAKA  186 (406)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCc-chhHHHHHHHHHHhh--------hhhhHHHHHHh
Confidence            1111       011             1  235788888877653 2333221 2333322        56788888999


Q ss_pred             CCCCC
Q 028305          132 DTDGG  136 (210)
Q Consensus       132 D~~~~  136 (210)
                      |....
T Consensus       187 DtisK  191 (406)
T KOG3859|consen  187 DTISK  191 (406)
T ss_pred             hhhhH
Confidence            97654

>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=98.55  E-value=9.2e-08  Score=65.35  Aligned_cols=60  Identities=27%  Similarity=0.314  Sum_probs=32.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      -.++|+|+.|||||||+|.|......      .....+.-+......+...+.   ..++||||..++.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g---~~iIDTPGf~~~~  101 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDG---GYIIDTPGFRSFG  101 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTS---EEEECSHHHHT--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCC---cEEEECCCCCccc
Confidence            46899999999999999999976322      111111111112223333222   4678999966543

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.51  E-value=5.5e-07  Score=67.82  Aligned_cols=101  Identities=16%  Similarity=0.135  Sum_probs=66.1

Q ss_pred             CCCccc-ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH
Q 028305           68 TAGQER-FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA  146 (210)
Q Consensus        68 ~~g~~~-~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~  146 (210)
                      .|||.. ........++.+|++++|+|+..+.+.... .....+    .     +.|+++|+||+|+.+.   ... ...
T Consensus         4 fpgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~-~i~~~l----~-----~kp~IiVlNK~DL~~~---~~~-~~~   69 (276)
T TIGR03596         4 FPGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRNP-MIDEIR----G-----NKPRLIVLNKADLADP---AVT-KQW   69 (276)
T ss_pred             ChHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCCh-hHHHHH----C-----CCCEEEEEEccccCCH---HHH-HHH
Confidence            366552 334456678899999999999876543321 111111    1     5699999999998642   111 111


Q ss_pred             HHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          147 LEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       147 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ....+..+ ..++.+|++++.|++++.+.+.+.+...
T Consensus        70 ~~~~~~~~-~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        70 LKYFEEKG-IKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             HHHHHHcC-CeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence            22223333 5789999999999999999998887554

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.46  E-value=6.5e-07  Score=60.54  Aligned_cols=77  Identities=23%  Similarity=0.170  Sum_probs=50.3

Q ss_pred             cccccCCcEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCC
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFE--SLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~--~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      ...+..+|++++|+|+.++.+..  .+..++...    .    .+.|+++|+||+|+.+.   . ...+.....+..+ .
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~----~~k~~iivlNK~DL~~~---~-~~~~~~~~~~~~~-~   72 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----D----PRKKNILLLNKADLLTE---E-QRKAWAEYFKKEG-I   72 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----c----CCCcEEEEEechhcCCH---H-HHHHHHHHHHhcC-C
Confidence            34577899999999999876543  233333222    1    16799999999998642   1 1223344445555 6


Q ss_pred             cEEEecCCCCCC
Q 028305          157 PYFETSAKEDCN  168 (210)
Q Consensus       157 ~~~~~Sa~~~~~  168 (210)
                      .++++||.++.+
T Consensus        73 ~ii~iSa~~~~~   84 (141)
T cd01857          73 VVVFFSALKENA   84 (141)
T ss_pred             eEEEEEecCCCc
Confidence            899999987653

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.45  E-value=2e-06  Score=67.98  Aligned_cols=116  Identities=17%  Similarity=0.200  Sum_probs=62.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh------CcCC----Cccc-----------ceeeeEEEEEEEEeC-----------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY------NKFS----QQYK-----------ATIGADFVTKELQMD-----------   57 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~------~~~~----~~~~-----------~~~~~~~~~~~~~~~-----------   57 (210)
                      ..+.-|+++|++||||||++.+|..      ....    +.+.           ...+..+.......+           
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~  177 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEK  177 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHH
Confidence            3467899999999999999988751      1100    1100           001111111110001           


Q ss_pred             --CeEEEEEEEeCCCccccccc----cccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           58 --DKLVTLQIWDTAGQERFQSL----GSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        58 --~~~~~~~i~D~~g~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                        ...+.+.++||+|.......    ...+  ...++.+++|.|.........   ....+...       -.+.-+|+|
T Consensus       178 ~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~---~a~~F~~~-------~~~~g~IlT  247 (429)
T TIGR01425       178 FKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEA---QAKAFKDS-------VDVGSVIIT  247 (429)
T ss_pred             HHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHH---HHHHHHhc-------cCCcEEEEE
Confidence              12467899999994322211    1111  234688999999875432222   12222221       126678899


Q ss_pred             cCCCCC
Q 028305          130 KIDTDG  135 (210)
Q Consensus       130 K~D~~~  135 (210)
                      |.|...
T Consensus       248 KlD~~a  253 (429)
T TIGR01425       248 KLDGHA  253 (429)
T ss_pred             CccCCC
Confidence            999754

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.45  E-value=1.9e-06  Score=66.00  Aligned_cols=145  Identities=17%  Similarity=0.221  Sum_probs=78.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC----------Cccc-----------ceeeeEEEEEEEEe-------------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS----------QQYK-----------ATIGADFVTKELQM-------------   56 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~----------~~~~-----------~~~~~~~~~~~~~~-------------   56 (210)
                      ..-.|+++|++|+||||++..|...-..          +.+.           ...+..+.......             
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~  192 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAA  192 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            4678999999999999999887522110          0000           00111111110000             


Q ss_pred             CCeEEEEEEEeCCCccccccc----cccc--------ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE
Q 028305           57 DDKLVTLQIWDTAGQERFQSL----GSAF--------YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF  124 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~----~~~~--------~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~  124 (210)
                      ....+.+.++||||.......    ...+        ....+.+++|.|.+...  +.+.+ ...+.+..       .+.
T Consensus       193 ~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~-a~~f~~~~-------~~~  262 (318)
T PRK10416        193 KARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQ-AKAFHEAV-------GLT  262 (318)
T ss_pred             HhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHH-HHHHHhhC-------CCC
Confidence            123357999999995432111    1111        12467899999998532  22222 12222211       155


Q ss_pred             EEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHH
Q 028305          125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       125 ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      -+|.||.|....      .-.+...+...+ .++..++  +|++++++-.
T Consensus       263 giIlTKlD~t~~------~G~~l~~~~~~~-~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        263 GIILTKLDGTAK------GGVVFAIADELG-IPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             EEEEECCCCCCC------ccHHHHHHHHHC-CCEEEEe--CCCChhhCcc
Confidence            788999996532      233344445555 8888887  7888877643

>PRK14974 cell division protein FtsY; Provisional

Probab=98.41  E-value=2.3e-06  Score=65.77  Aligned_cols=95  Identities=18%  Similarity=0.148  Sum_probs=53.8

Q ss_pred             EEEEEEeCCCcccccc----ccccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           61 VTLQIWDTAGQERFQS----LGSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~----~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ..+.++||+|......    .....  ....|.+++|.|.......  + .....+....      + +--+|+||.|..
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~--~-~~a~~f~~~~------~-~~giIlTKlD~~  292 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDA--V-EQAREFNEAV------G-IDGVILTKVDAD  292 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhH--H-HHHHHHHhcC------C-CCEEEEeeecCC
Confidence            4589999999543111    11111  1257899999998654321  1 1112222211      2 457888999986


Q ss_pred             CCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHH
Q 028305          135 GGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ...      -.+...+...+ .++.+++  +|.+++++..
T Consensus       293 ~~~------G~~ls~~~~~~-~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        293 AKG------GAALSIAYVIG-KPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             CCc------cHHHHHHHHHC-cCEEEEe--CCCChhhccc
Confidence            431      22333333444 7888876  7888877654

>PRK12288 GTPase RsgA; Reviewed

Probab=98.40  E-value=7e-07  Score=69.08  Aligned_cols=22  Identities=45%  Similarity=0.718  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ++|+|.+|+|||||+|+|.+..
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             EEEECCCCCCHHHHHHHhcccc
Confidence            7899999999999999999654

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.39  E-value=1.7e-06  Score=59.64  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++++|..|+|||||+++++..
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999998855

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.38  E-value=2.3e-06  Score=66.95  Aligned_cols=96  Identities=21%  Similarity=0.169  Sum_probs=60.8

Q ss_pred             cccccccccccCCc-EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHHHH
Q 028305           73 RFQSLGSAFYRGAD-CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALEWC  150 (210)
Q Consensus        73 ~~~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~~~  150 (210)
                      ++..... .+...+ .+++|+|+.+..     ..|...+.+...     +.|+++|+||+|+.+... .....+....++
T Consensus        58 ~~~~~l~-~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-----~kpviLViNK~DLl~~~~~~~~i~~~l~~~~  126 (365)
T PRK13796         58 DFLKLLN-GIGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-----NNPVLLVGNKADLLPKSVKKNKVKNWLRQEA  126 (365)
T ss_pred             HHHHHHH-hhcccCcEEEEEEECccCC-----CchhHHHHHHhC-----CCCEEEEEEchhhCCCccCHHHHHHHHHHHH
Confidence            3444333 334455 999999998743     234444444332     569999999999965311 112222334445


Q ss_pred             HHcCC--CcEEEecCCCCCChHHHHHHHHHH
Q 028305          151 AYRGN--IPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       151 ~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +..+.  ..++.+||++|.|++++++.+.+.
T Consensus       127 k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        127 KELGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             HhcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            55552  268999999999999999999764

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.38  E-value=1.5e-06  Score=65.81  Aligned_cols=101  Identities=18%  Similarity=0.194  Sum_probs=66.8

Q ss_pred             CCCccc-ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH
Q 028305           68 TAGQER-FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA  146 (210)
Q Consensus        68 ~~g~~~-~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~  146 (210)
                      .|||+. ........+..+|++++|+|...+.+...  .++..+.   .     +.|+++|+||+|+.+.   .. .+..
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~---~-----~kp~iiVlNK~DL~~~---~~-~~~~   72 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII---G-----NKPRLLILNKSDLADP---EV-TKKW   72 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh---C-----CCCEEEEEEchhcCCH---HH-HHHH
Confidence            477653 23445667889999999999987754332  1111211   1     4699999999998642   11 1222


Q ss_pred             HHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          147 LEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       147 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ..+.+..+ ..++.+|++++.|++++.+.+.+.+...
T Consensus        73 ~~~~~~~~-~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         73 IEYFEEQG-IKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             HHHHHHcC-CeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            22223333 6789999999999999999998887554

>PRK01889 GTPase RsgA; Reviewed

Probab=98.37  E-value=3.4e-06  Score=65.71  Aligned_cols=84  Identities=15%  Similarity=0.132  Sum_probs=58.3

Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      +.++|.+++|+++..+-....+..++..+...       ++|.++|+||+|+.+.  ..   +....+.......+++.+
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~-------~i~piIVLNK~DL~~~--~~---~~~~~~~~~~~g~~Vi~v  177 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES-------GAEPVIVLTKADLCED--AE---EKIAEVEALAPGVPVLAV  177 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc-------CCCEEEEEEChhcCCC--HH---HHHHHHHHhCCCCcEEEE
Confidence            57899999999997544444555655555433       6788999999999753  11   122222222233789999


Q ss_pred             cCCCCCChHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVA  177 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~  177 (210)
                      |++++.|++++..++.
T Consensus       178 Sa~~g~gl~~L~~~L~  193 (356)
T PRK01889        178 SALDGEGLDVLAAWLS  193 (356)
T ss_pred             ECCCCccHHHHHHHhh
Confidence            9999999999888874

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=98.35  E-value=2.1e-06  Score=66.05  Aligned_cols=161  Identities=15%  Similarity=0.133  Sum_probs=100.7

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEE
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQ   55 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~   55 (210)
                      ..+...++++|+|...+||||+-..+....-.                               .....+.+.......+.
T Consensus        74 ~~pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FE  153 (501)
T KOG0459|consen   74 EYPKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFE  153 (501)
T ss_pred             CCCCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEE
Confidence            34578999999999999999987655311100                               11222223333334444


Q ss_pred             eCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh---hHHHHHH--HHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           56 MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK---TFESLQN--WREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        56 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~~--~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      ..  +-.+.+.|+||+..|-........++|..++|+++...+   .|+.-.+  -...+.+...     -...|+++||
T Consensus       154 te--~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~g-----v~~lVv~vNK  226 (501)
T KOG0459|consen  154 TE--NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAG-----VKHLIVLINK  226 (501)
T ss_pred             ec--ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhc-----cceEEEEEEe
Confidence            43  456889999999988888878888999999999886432   2222211  1223333322     3368899999


Q ss_pred             CCCCCCCCc----ccchHHHHHHHHHcC-----CCcEEEecCCCCCChHHHHH
Q 028305          131 IDTDGGSSR----VVPQKKALEWCAYRG-----NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       131 ~D~~~~~~~----~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      +|-....-.    ....+.+..|++..+     ...++++|..+|.++.+...
T Consensus       227 MddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  227 MDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             ccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            997543222    223334444554333     35699999999999987654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.35  E-value=3.9e-06  Score=62.92  Aligned_cols=96  Identities=17%  Similarity=0.086  Sum_probs=55.4

Q ss_pred             EEEEEEEeCCCcccccccc----c---cc-----ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEE
Q 028305           60 LVTLQIWDTAGQERFQSLG----S---AF-----YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL  127 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~----~---~~-----~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv  127 (210)
                      .+.+.++||||........    .   ..     ...+|.+++|+|....  .+.+. ....+.+..      + +.-+|
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~-~~~~f~~~~------~-~~g~I  223 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALE-QAKVFNEAV------G-LTGII  223 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHH-HHHHHHhhC------C-CCEEE
Confidence            3678999999954322111    0   11     1237999999999753  22222 223332221      1 46788


Q ss_pred             EecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHH
Q 028305          128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       128 ~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      .||.|....      .-.+.......+ .++.+++  +|++++++-.
T Consensus       224 lTKlDe~~~------~G~~l~~~~~~~-~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       224 LTKLDGTAK------GGIILSIAYELK-LPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             EEccCCCCC------ccHHHHHHHHHC-cCEEEEe--CCCChHhCcc
Confidence            999997543      233334444455 7888886  7777776644

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.35  E-value=6.1e-06  Score=66.02  Aligned_cols=81  Identities=15%  Similarity=0.266  Sum_probs=51.7

Q ss_pred             EEEEEeCCC-------------cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEE
Q 028305           62 TLQIWDTAG-------------QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG  128 (210)
Q Consensus        62 ~~~i~D~~g-------------~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~  128 (210)
                      .+.++|.||             .+....+...++.+.+++|+|+-=   .|.+.-......+...+.+.   +...|+|.
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQD---GSVDAERSnVTDLVsq~DP~---GrRTIfVL  486 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQD---GSVDAERSIVTDLVSQMDPH---GRRTIFVL  486 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEecc---CCcchhhhhHHHHHHhcCCC---CCeeEEEE
Confidence            578899999             223345557778899999999852   23333333444444444443   56799999


Q ss_pred             ecCCCCCCCCcccchHHHHHHH
Q 028305          129 NKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus       129 ~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      +|.|+.+.  .......++++.
T Consensus       487 TKVDlAEk--nlA~PdRI~kIl  506 (980)
T KOG0447|consen  487 TKVDLAEK--NVASPSRIQQII  506 (980)
T ss_pred             eecchhhh--ccCCHHHHHHHH
Confidence            99999764  233445555544

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.34  E-value=5.5e-07  Score=69.51  Aligned_cols=121  Identities=19%  Similarity=0.224  Sum_probs=89.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC----Cc------------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS----QQ------------YKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ...+..+|.++....+||||-..|++.-.-.    ..            .....++......++++=...++.++||||+
T Consensus        33 ~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpgh  112 (753)
T KOG0464|consen   33 AIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGH  112 (753)
T ss_pred             chhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCc
Confidence            3456778999999999999999987621110    00            0112244566666777777788999999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      -+|.-..+..++--|+++.|||.+..-....+.-|.+.-        ..++|-++++||+|....
T Consensus       113 vdf~leverclrvldgavav~dasagve~qtltvwrqad--------k~~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen  113 VDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQAD--------KFKIPAHCFINKMDKLAA  169 (753)
T ss_pred             ceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhcc--------ccCCchhhhhhhhhhhhh
Confidence            999999999999999999999998765555555554332        128899999999998643

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.33  E-value=1.1e-06  Score=64.98  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|.+|+|||||+|+|.+..
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhh
Confidence            68999999999999999999653

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.32  E-value=1.1e-06  Score=68.57  Aligned_cols=55  Identities=29%  Similarity=0.438  Sum_probs=37.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      .+++|+|.+|+|||||+|+|+....      .....|+++....  .+..++   .+.++||||..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~--~~~~~~---~~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLI--EIPLDD---GHSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEE--EEEeCC---CCEEEECCCCC
Confidence            4899999999999999999996432      2233444444433  333322   25699999954

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.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.30  E-value=4e-05  Score=59.84  Aligned_cols=163  Identities=16%  Similarity=0.172  Sum_probs=94.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC----------------Ccccceeee-----EEE---EEEEEe-CCeEEEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS----------------QQYKATIGA-----DFV---TKELQM-DDKLVTLQ   64 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~-----~~~---~~~~~~-~~~~~~~~   64 (210)
                      .-.+=|.||||.-+||||||.||......                +++..+.++     .+.   -..+.+ ++..+++.
T Consensus        15 ~GdIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVR   94 (492)
T PF09547_consen   15 GGDIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVR   94 (492)
T ss_pred             CCceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEE
Confidence            34567899999999999999999632211                122121111     111   112222 57778999


Q ss_pred             EEeCCCcc--------c-----c-cccc---------------cccc--cCCcEEEEEEECCC----hhhHHH-HHHHHH
Q 028305           65 IWDTAGQE--------R-----F-QSLG---------------SAFY--RGADCCVLVYDVNV----QKTFES-LQNWRE  108 (210)
Q Consensus        65 i~D~~g~~--------~-----~-~~~~---------------~~~~--~~~d~vi~v~d~~~----~~s~~~-~~~~~~  108 (210)
                      ++|+-|-.        +     . ..-|               ...+  +..=++++.-|-+-    ++.+.. -.+...
T Consensus        95 LiDCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~  174 (492)
T PF09547_consen   95 LIDCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIE  174 (492)
T ss_pred             EEeecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHH
Confidence            99998810        0     0 0000               0111  12336677666542    233333 345566


Q ss_pred             HHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          109 EFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       109 ~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +|...       +.|+++++|-.+-.    .....+...++..+++ ++++++++.+- .-+++..-|.+.+++..-
T Consensus       175 ELk~i-------gKPFvillNs~~P~----s~et~~L~~eL~ekY~-vpVlpvnc~~l-~~~DI~~Il~~vLyEFPV  238 (492)
T PF09547_consen  175 ELKEI-------GKPFVILLNSTKPY----SEETQELAEELEEKYD-VPVLPVNCEQL-REEDITRILEEVLYEFPV  238 (492)
T ss_pred             HHHHh-------CCCEEEEEeCCCCC----CHHHHHHHHHHHHHhC-CcEEEeehHHc-CHHHHHHHHHHHHhcCCc
Confidence            66654       77999999988754    3455667777778887 99999987542 345555555555555543

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.28  E-value=1.4e-06  Score=68.05  Aligned_cols=55  Identities=27%  Similarity=0.384  Sum_probs=36.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC------CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF------SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      .++.|+|.+|+|||||+|+|+....      .....|+++.+..  .+..++.   ..++||||..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~--~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKI--EIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeE--EEEcCCC---cEEEECCCcc
Confidence            4799999999999999999985421      1223444444433  3333332   4689999953

>PRK12289 GTPase RsgA; Reviewed

Probab=98.27  E-value=1.7e-06  Score=66.99  Aligned_cols=23  Identities=43%  Similarity=0.683  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|++|+|||||+|+|++..
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDV  196 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCcc
Confidence            37999999999999999999654

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.24  E-value=1.9e-06  Score=64.36  Aligned_cols=59  Identities=22%  Similarity=0.262  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      ..+++|+.|+|||||+|+|....-.      .....+.-++.....+...+.   -.++||||..++.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~g---G~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGG---GWIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCC---CEEEeCCCCCccC
Confidence            5789999999999999999853221      111122222333444455322   2477999976544

>PRK13695 putative NTPase; Provisional

Probab=98.20  E-value=5.8e-05  Score=52.92  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++|+++|++|+|||||++.+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998653

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=98.15  E-value=1.7e-06  Score=61.84  Aligned_cols=110  Identities=11%  Similarity=-0.004  Sum_probs=57.5

Q ss_pred             EEEEEEeCCCcccccccc------cccccCCcEEEEEEEC------CChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEE
Q 028305           61 VTLQIWDTAGQERFQSLG------SAFYRGADCCVLVYDV------NVQKTFESLQNWREEFLKQADPGEHEACPFVLLG  128 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~------~~~~~~~d~vi~v~d~------~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~  128 (210)
                      ....++|+|||-++....      ...++.-+.-+.++.+      ++|..|-..  .+..+..++..    ..|-|=|.
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS~--lL~sl~tMl~m----elphVNvl  170 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFISS--LLVSLATMLHM----ELPHVNVL  170 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHHH--HHHHHHHHHhh----cccchhhh
Confidence            457899999977644332      2223334433333333      445544332  22222222222    56888899


Q ss_pred             ecCCCCCCC--------------------------Cc----ccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHH
Q 028305          129 NKIDTDGGS--------------------------SR----VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV  176 (210)
Q Consensus       129 ~K~D~~~~~--------------------------~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l  176 (210)
                      .|+|+...-                          ++    ....+++..+.+.++-+.+......+.+.+-.+...|
T Consensus       171 SK~Dl~~~ygkl~f~ld~yt~v~Dl~yL~~~ld~dp~~~kYrkLne~ic~~IeD~~LVSF~~L~v~nkeSml~l~~~I  248 (290)
T KOG1533|consen  171 SKADLLKKYGKLPFNLDFYTEVQDLSYLEDLLDVDPRLRKYRKLNEAICELIEDFNLVSFEVLDVDNKESMLRLQQTI  248 (290)
T ss_pred             hHhHHHHhhcccccccchhhhhhhHHHHHHHhccChhhhHHHHHHHHHHHHHhccCceeeEEeeccCHHHHHHHHHHH
Confidence            999974321                          01    2334555666666665666666655555554444443

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.14  E-value=5.9e-06  Score=62.61  Aligned_cols=60  Identities=20%  Similarity=0.210  Sum_probs=35.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcc-c-----ceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQY-K-----ATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ   75 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   75 (210)
                      -.++++|++|+|||||+|.|.+....... .     .+..++.....+...+.   ..++||||..++.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCccC
Confidence            46999999999999999999865432111 1     11111122223333322   3589999976543

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.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.12  E-value=2.3e-06  Score=61.14  Aligned_cols=123  Identities=15%  Similarity=0.118  Sum_probs=67.9

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNV----------QKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      +.+.+.|.+|+...+..|...+.++-.++++..++.          ....+.....+..+..+   -=.++.++|++.||
T Consensus       199 iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~y---PWF~nssVIlFLNK  275 (359)
T KOG0085|consen  199 IIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITY---PWFQNSSVILFLNK  275 (359)
T ss_pred             heeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhcc---ccccCCceEEEech
Confidence            445566777766555555555555444444333321          11222222222222222   12237799999999


Q ss_pred             CCCCCCC--------------CcccchHHHHHHHHHc----C-----CCcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          131 IDTDGGS--------------SRVVPQKKALEWCAYR----G-----NIPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       131 ~D~~~~~--------------~~~~~~~~~~~~~~~~----~-----~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      .|+.++.              ......+..++|..+.    +     .+.-..++|.+.+|++-+|..+.+.+++.+.+
T Consensus       276 kDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~Lk  354 (359)
T KOG0085|consen  276 KDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNLK  354 (359)
T ss_pred             hhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhhhH
Confidence            9986531              1122333333333222    2     12235688899999999999999999887654

>PRK00098 GTPase RsgA; Reviewed

Probab=98.09  E-value=8.3e-06  Score=62.14  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      -.++++|++|+|||||+|.|.+...
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~~  189 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDLE  189 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCcC
Confidence            3589999999999999999986543

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=98.08  E-value=1.5e-05  Score=56.34  Aligned_cols=119  Identities=11%  Similarity=0.107  Sum_probs=65.4

Q ss_pred             EEEEEeCCCccccccccc---ccc---cC--C-cEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           62 TLQIWDTAGQERFQSLGS---AFY---RG--A-DCCVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~~---~~~---~~--~-d~vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      .+.++|+|||.+.....+   ..+   ++  . =+++|+.|..= -++...+...+..+..+..-    .+|-|=|.+|.
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~l----E~P~INvlsKM  174 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISL----EVPHINVLSKM  174 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHh----cCcchhhhhHH
Confidence            478899999876544332   111   11  1 25556655321 12333334444444333322    67999999999


Q ss_pred             CCCCCCC---------------------------cccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          132 DTDGGSS---------------------------RVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       132 D~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      |+.....                           .......+..+...++-+.+++....+.+.++.++..|-.++.=.+
T Consensus       175 DLlk~~~k~~l~~Fl~~d~~~l~~~~~~~~~s~Kf~~L~~~i~~~v~d~~Mv~FlPl~~~~eeSi~~iL~~ID~aiQy~E  254 (273)
T KOG1534|consen  175 DLLKDKNKKELERFLNPDEYLLLEDSEINLRSPKFKKLTKCIAQLVDDYSMVNFLPLDSSDEESINIILSYIDDAIQYGE  254 (273)
T ss_pred             HHhhhhhHHHHHHhcCCchhhhhcccccccccHHHHHHHHHHHHHhccccceeeeecCCCCHHHHHHHHHHHHHHHHhcc
Confidence            9854310                           0011122233334455566888888888888888877766654443

>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=98.07  E-value=2.4e-05  Score=54.36  Aligned_cols=22  Identities=32%  Similarity=0.696  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +|++.|+||+|||||+++++..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHH
Confidence            6899999999999999998843

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.05  E-value=5.6e-05  Score=58.96  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-.++|+|++|+||||++.+|..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~  159 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAA  159 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999998874

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=98.04  E-value=0.00016  Score=55.52  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.+|.|.-|||||||+++++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            4578899999999999999854

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.03  E-value=0.00018  Score=58.35  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-.|+|+|+.|+||||++.+|..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999988763

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.02  E-value=8.6e-06  Score=64.54  Aligned_cols=55  Identities=22%  Similarity=0.279  Sum_probs=38.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      .+.|.+||.||+||||+||+|.+.... ....|+-+-.+  .++.++.   .+.+.|+||.
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHF--QTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHF--QTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCccee--EEEEcCC---CceecCCCCc
Confidence            699999999999999999999977643 33444444333  3333333   2677899993

>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=98.00  E-value=7.2e-05  Score=59.28  Aligned_cols=119  Identities=18%  Similarity=0.178  Sum_probs=72.5

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChh-------hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-------TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-------s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ..+.++|.+|+...+..|..++.+++++|||+++++-+       ....+..-+..+...+......+.|++|+.||.|+
T Consensus       236 ~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  236 RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            67899999999999999999999999999999987421       11112222223333223223337899999999996


Q ss_pred             CCC----CC----------cc--cchHHHHHHHHHc-----------CCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          134 DGG----SS----------RV--VPQKKALEWCAYR-----------GNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       134 ~~~----~~----------~~--~~~~~~~~~~~~~-----------~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ...    .+          -.  ...+.+..+....           ..+.+..++|.+..++..+|+.+.+.
T Consensus       316 f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~  388 (389)
T PF00503_consen  316 FEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDI  388 (389)
T ss_dssp             HHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHH
T ss_pred             HHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCc
Confidence            211    00          00  1223333222111           12345677788888888888777654

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 ....

>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=98.00  E-value=8.2e-05  Score=53.10  Aligned_cols=84  Identities=20%  Similarity=0.172  Sum_probs=45.9

Q ss_pred             EEEEEEeCCCcccccc----ccccc--ccCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           61 VTLQIWDTAGQERFQS----LGSAF--YRGADCCVLVYDVNVQKT-FESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~----~~~~~--~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ..+.++||+|......    ....+  ....+-+++|.+.+.... ...+..++..+          + +-=++.||.|.
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~----------~-~~~lIlTKlDe  152 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAF----------G-IDGLILTKLDE  152 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHS----------S-TCEEEEESTTS
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcc----------c-CceEEEEeecC
Confidence            4589999999433221    11111  125678999999876432 22222222221          2 33567899997


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ...      .-.+...+...+ .++-.++
T Consensus       153 t~~------~G~~l~~~~~~~-~Pi~~it  174 (196)
T PF00448_consen  153 TAR------LGALLSLAYESG-LPISYIT  174 (196)
T ss_dssp             SST------THHHHHHHHHHT-SEEEEEE
T ss_pred             CCC------cccceeHHHHhC-CCeEEEE
Confidence            543      344555555566 6666654

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 ....

>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=97.98  E-value=5.6e-05  Score=52.89  Aligned_cols=66  Identities=21%  Similarity=0.168  Sum_probs=36.6

Q ss_pred             EEEEEEeCCCcccc----ccccccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           61 VTLQIWDTAGQERF----QSLGSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        61 ~~~~i~D~~g~~~~----~~~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ..+.++|++|....    ......+  ....+.+++|++......  . ..+...+.+..      + ..-+|.||.|..
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~--~-~~~~~~~~~~~------~-~~~viltk~D~~  152 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD--A-VNQAKAFNEAL------G-ITGVILTKLDGD  152 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH--H-HHHHHHHHhhC------C-CCEEEEECCcCC
Confidence            45788999996422    1111111  124799999999865432  1 22333332221      2 356777999976


Q ss_pred             CC
Q 028305          135 GG  136 (210)
Q Consensus       135 ~~  136 (210)
                      ..
T Consensus       153 ~~  154 (173)
T cd03115         153 AR  154 (173)
T ss_pred             CC
Confidence            43

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.

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.98  E-value=5.2e-05  Score=66.66  Aligned_cols=114  Identities=22%  Similarity=0.222  Sum_probs=61.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCC--Ccc-ccee-eeEEEEEEEEeCCeEEEEEEEeCCCccc--------cccccccc-
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFS--QQY-KATI-GADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSAF-   81 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~--~~~-~~~~-~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~-   81 (210)
                      -+|+|+||+||||++..- +..|+  ... ..+. +.........+.++   -.++||.|.-.        -...+..+ 
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~gT~~cdwwf~de---aVlIDtaGry~~q~s~~~~~~~~W~~fL  203 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPGTRNCDWWFTDE---AVLIDTAGRYITQDSADEVDRAEWLGFL  203 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhccccccCCCCcccCcccccc---eEEEcCCcceecccCcchhhHHHHHHHH
Confidence            479999999999998642 22222  000 0000 00111122222232   56889998221        12222222 


Q ss_pred             --------ccCCcEEEEEEECCChh-----hH----HHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           82 --------YRGADCCVLVYDVNVQK-----TF----ESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        82 --------~~~~d~vi~v~d~~~~~-----s~----~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                              .+-.|++|+.+|+.+--     .-    ..+..-+.++...+..    ..|+.|++||.|+...
T Consensus       204 ~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~----~~PVYl~lTk~Dll~G  271 (1188)
T COG3523         204 GLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHA----RLPVYLVLTKADLLPG  271 (1188)
T ss_pred             HHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcc----CCceEEEEeccccccc
Confidence                    23469999999987521     11    1122234444444443    7899999999999764

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.95  E-value=0.00012  Score=54.88  Aligned_cols=88  Identities=20%  Similarity=0.113  Sum_probs=62.8

Q ss_pred             ccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           82 YRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ..+.|-+++|+.+.+|+ +...+.+++-.....       ++.-++++||+|+.+.+....  ++........+ ++++.
T Consensus        77 v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~-------gi~pvIvlnK~DL~~~~~~~~--~~~~~~y~~~g-y~v~~  146 (301)
T COG1162          77 VANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAG-------GIEPVIVLNKIDLLDDEEAAV--KELLREYEDIG-YPVLF  146 (301)
T ss_pred             ccccceEEEEEeccCCCCCHHHHHHHHHHHHHc-------CCcEEEEEEccccCcchHHHH--HHHHHHHHhCC-eeEEE
Confidence            44577788888888875 344455554444332       666778899999987643333  45566666677 99999


Q ss_pred             ecCCCCCChHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +|++++.+++++...+...
T Consensus       147 ~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         147 VSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             ecCcCcccHHHHHHHhcCC
Confidence            9999999999998887654

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.94  E-value=7.4e-05  Score=50.89  Aligned_cols=58  Identities=17%  Similarity=0.183  Sum_probs=35.7

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      .+.+.++||+|...   ....++..+|-++++...+-.+.+.-++   ..+.         ...-++++||+|
T Consensus        91 ~~D~iiIDtaG~~~---~~~~~~~~Ad~~ivv~tpe~~D~y~~~k---~~~~---------~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQ---SEVDIASMADTTVVVMAPGAGDDIQAIK---AGIM---------EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccCh---hhhhHHHhCCEEEEEECCCchhHHHHhh---hhHh---------hhcCEEEEeCCC
Confidence            35789999988542   2234778899899888766322222211   1221         224588899987

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.91  E-value=0.00015  Score=57.94  Aligned_cols=24  Identities=21%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..+..|+++|++|+||||.+..|.
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA  116 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLA  116 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHH
Confidence            357789999999999999998764

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.87  E-value=2.7e-05  Score=58.22  Aligned_cols=61  Identities=20%  Similarity=0.312  Sum_probs=39.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ....+++.|+|-||+|||||+|++......      ....++.+...... +.+... -.+.+.||||-
T Consensus       140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~-iri~~r-p~vy~iDTPGi  206 (335)
T KOG2485|consen  140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSER-IRISHR-PPVYLIDTPGI  206 (335)
T ss_pred             cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhh-eEeccC-CceEEecCCCc
Confidence            356889999999999999999988644332      23344454444332 223222 23788899993

>PRK10867 signal recognition particle protein; Provisional

Probab=97.87  E-value=0.00021  Score=56.97  Aligned_cols=86  Identities=23%  Similarity=0.152  Sum_probs=45.7

Q ss_pred             EEEEEEeCCCccccc----cccccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           61 VTLQIWDTAGQERFQ----SLGSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~----~~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      +.+.++||+|.....    .....+  .-..+.+++|.|....   .........+....      + ..-+|.||.|..
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~~------~-i~giIlTKlD~~  253 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEAL------G-LTGVILTKLDGD  253 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhhC------C-CCEEEEeCccCc
Confidence            568999999943211    111111  1246788999997653   22223333333221      1 245777999964


Q ss_pred             CCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305          135 GGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      ..      .-.+.......+ .|+.+++.
T Consensus       254 ~r------gG~alsi~~~~~-~PI~fig~  275 (433)
T PRK10867        254 AR------GGAALSIRAVTG-KPIKFIGT  275 (433)
T ss_pred             cc------ccHHHHHHHHHC-cCEEEEeC
Confidence            32      122444555555 66666543

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.86  E-value=0.00065  Score=52.17  Aligned_cols=89  Identities=17%  Similarity=0.014  Sum_probs=47.7

Q ss_pred             EEEEEEeCCCcccccccccccc--------cCCcEEEEEEECCChhhHHH-HH-HHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           61 VTLQIWDTAGQERFQSLGSAFY--------RGADCCVLVYDVNVQKTFES-LQ-NWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~--------~~~d~vi~v~d~~~~~s~~~-~~-~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      ....++.+.|-.........+.        -..|+++-|+|+.+-..... +. ....++          ...-++|+||
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qi----------a~AD~ivlNK  154 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQL----------AFADVIVLNK  154 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHH----------HhCcEEEEec
Confidence            3456677777333322221111        13478999999876432211 11 222233          2245899999


Q ss_pred             CCCCCCCCcccchHHHHHHHHHcC-CCcEEEecC
Q 028305          131 IDTDGGSSRVVPQKKALEWCAYRG-NIPYFETSA  163 (210)
Q Consensus       131 ~D~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa  163 (210)
                      .|+.++.   . .+..+...+..+ ..+++.++.
T Consensus       155 ~Dlv~~~---~-l~~l~~~l~~lnp~A~i~~~~~  184 (323)
T COG0523         155 TDLVDAE---E-LEALEARLRKLNPRARIIETSY  184 (323)
T ss_pred             ccCCCHH---H-HHHHHHHHHHhCCCCeEEEccc
Confidence            9998752   1 344444444443 466777776

>TIGR00959 ffh signal recognition particle protein

Probab=97.85  E-value=0.00025  Score=56.56  Aligned_cols=86  Identities=22%  Similarity=0.160  Sum_probs=47.1

Q ss_pred             EEEEEEeCCCccccccc----cccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           61 VTLQIWDTAGQERFQSL----GSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      +.+.++||+|.......    ...+  .-..+.+++|+|.....   ....+...+....      + ..=+|.||.|..
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v------~-i~giIlTKlD~~  252 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL------G-LTGVVLTKLDGD  252 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC------C-CCEEEEeCccCc
Confidence            56899999994322111    1111  22478899999986532   2333333443222      2 345778999964


Q ss_pred             CCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305          135 GGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      ..      .-.+...+...+ .|+.++..
T Consensus       253 ~~------~G~~lsi~~~~~-~PI~fi~~  274 (428)
T TIGR00959       253 AR------GGAALSVRSVTG-KPIKFIGV  274 (428)
T ss_pred             cc------ccHHHHHHHHHC-cCEEEEeC
Confidence            32      123555555555 66666543

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.

>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=97.83  E-value=0.00012  Score=40.50  Aligned_cols=45  Identities=24%  Similarity=0.219  Sum_probs=29.0

Q ss_pred             cCCcEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           83 RGADCCVLVYDVNVQKT--FESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s--~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      +-.++++|++|++....  .+.-...+..+.....     +.|+++|.||+|
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            34689999999998654  4444566777776654     779999999998

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.74  E-value=0.00032  Score=47.25  Aligned_cols=106  Identities=18%  Similarity=0.198  Sum_probs=59.4

Q ss_pred             EEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEEC
Q 028305           16 IVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDV   94 (210)
Q Consensus        16 ~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~   94 (210)
                      ..-|..|+|||++.-.+...-- .....-....+.     ......+.+.++|+|+...  ......+..+|.++++.+.
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~-----~~~~~~yd~VIiD~p~~~~--~~~~~~l~~aD~vviv~~~   76 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKLGKRVLLLDADL-----GLANLDYDYIIIDTGAGIS--DNVLDFFLAADEVIVVTTP   76 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEECCC-----CCCCCCCCEEEEECCCCCC--HHHHHHHHhCCeEEEEcCC
Confidence            3456789999998766542110 000000011111     0011115689999998543  3334668889999999987


Q ss_pred             CChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           95 NVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        95 ~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      + ..++......+..+.....     ..++.+|.|+.+..
T Consensus        77 ~-~~s~~~~~~~l~~l~~~~~-----~~~~~lVvN~~~~~  110 (139)
T cd02038          77 E-PTSITDAYALIKKLAKQLR-----VLNFRVVVNRAESP  110 (139)
T ss_pred             C-hhHHHHHHHHHHHHHHhcC-----CCCEEEEEeCCCCH
Confidence            6 3444444444444443221     44788999999743

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.

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.73  E-value=3.1e-05  Score=59.69  Aligned_cols=56  Identities=21%  Similarity=0.398  Sum_probs=40.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      ...+++.|+|-|++||||+||+|..... .....|+.+  .....+..+.   .+.+.|.||
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT--~smqeV~Ldk---~i~llDsPg  306 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVT--RSMQEVKLDK---KIRLLDSPG  306 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccccCCCCccch--hhhhheeccC---CceeccCCc
Confidence            6789999999999999999999986654 334444443  3334444444   378889999

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.71  E-value=0.00021  Score=56.98  Aligned_cols=117  Identities=21%  Similarity=0.227  Sum_probs=74.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC----------------CcccceeeeEEEEEEE--------------EeCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS----------------QQYKATIGADFVTKEL--------------QMDD   58 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~--------------~~~~   58 (210)
                      +....++-|+.+..-|||||..+|....-.                ++...++++.-.-...              ..++
T Consensus        16 ~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~   95 (842)
T KOG0469|consen   16 KKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDG   95 (842)
T ss_pred             ccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCC
Confidence            345667889999999999999988632211                1111111111111111              1144


Q ss_pred             eEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           59 KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ....++++|.||+-+|.+.....++-.|+.+.|+|.-+.--...-.-..+.+..        .+.-+++.||.|.
T Consensus        96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E--------RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE--------RIKPVLVMNKMDR  162 (842)
T ss_pred             cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh--------hccceEEeehhhH
Confidence            467899999999999999999999999999999998765322222222233332        2233567799996

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.70  E-value=1.9e-05  Score=59.23  Aligned_cols=108  Identities=14%  Similarity=0.222  Sum_probs=63.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc--------------
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE--------------   72 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------------   72 (210)
                      ++......++++|++|.|||+++++|........ ....             ..+.+....+|...              
T Consensus        56 P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~-d~~~-------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   56 PKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQS-DEDA-------------ERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             CcccCCCceEEecCCCCcHHHHHHHHHHHCCCCC-CCCC-------------ccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            3455678899999999999999999997554321 1111             11234444444311              


Q ss_pred             ----------cccccccccccCCcEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           73 ----------RFQSLGSAFYRGADCCVLVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        73 ----------~~~~~~~~~~~~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                                .........++....=++++|--+.   .+...-..+++.++.....   .++|+|.||++-
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~Ne---L~ipiV~vGt~~  190 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNE---LQIPIVGVGTRE  190 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhc---cCCCeEEeccHH
Confidence                      1112223445667888999997653   2333334444555444322   278999998763

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>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=97.69  E-value=3.7e-05  Score=50.39  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
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            489999999999999999885

...

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.68  E-value=6.6e-06  Score=59.77  Aligned_cols=153  Identities=16%  Similarity=0.164  Sum_probs=87.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccccccccC---
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAFYRG---   84 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~---   84 (210)
                      ....+.|++.|.  -|||++|++++...-.. ..++....+...-..- .+..--.++|+.+|......+...-+..   
T Consensus        42 ~~~E~~I~~~Gn--~~~tt~I~~~FdR~e~~-~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l  118 (363)
T KOG3929|consen   42 EKFEFFIGSKGN--GGKTTIILRCFDRDEPP-KPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTL  118 (363)
T ss_pred             ccceeEEEEecC--CceeEeehhhcCcccCC-CCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcccccch
Confidence            356788999985  45699999988655432 2344444443332221 1233347899999976655554433322   


Q ss_pred             -CcEEEEEEECCChhh-HHHHHHHHHHHH--------------------------Hh-cC------CCCCCCCCEEEEEe
Q 028305           85 -ADCCVLVYDVNVQKT-FESLQNWREEFL--------------------------KQ-AD------PGEHEACPFVLLGN  129 (210)
Q Consensus        85 -~d~vi~v~d~~~~~s-~~~~~~~~~~l~--------------------------~~-~~------~~~~~~~p~ilv~~  129 (210)
                       .=.+|++.|+++++. |..++..++.+.                          +. ..      ....-.+|+++|+.
T Consensus       119 ~~~slIL~LDls~p~~~W~t~E~~~~~~R~~vd~~~~~~~k~~~~L~E~mrqR~~~rvgqd~~d~e~~dP~P~PV~IVgs  198 (363)
T KOG3929|consen  119 RTFSLILVLDLSKPNDLWPTMENLLQATRSHVDKVIMKLGKTNAKLVEEMRQRIWNRVGQDHPDHELIDPFPVPVVIVGS  198 (363)
T ss_pred             hhhhheeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHhcccCCCchhhcCCCCCceEEecc
Confidence             236899999999753 344444333321                          10 00      01112579999999


Q ss_pred             cCCCCCCC---CcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305          130 KIDTDGGS---SRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus       130 K~D~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |.|....-   .+.....-.+.++..+| ...+..|++-
T Consensus       199 KYDvFq~FesekRkH~C~~LRf~Ah~yG-aaLlmfSskM  236 (363)
T KOG3929|consen  199 KYDVFQDFESEKRKHICKTLRFVAHYYG-AALLMFSSKM  236 (363)
T ss_pred             chhhhccccHHHHHHHHHHHHHHHHHhh-hHHHHHHHhh
Confidence            99985432   23444455566666666 5555666653

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.67  E-value=0.00039  Score=50.60  Aligned_cols=114  Identities=20%  Similarity=0.299  Sum_probs=66.4

Q ss_pred             EEEEEEcCCCC--cHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeE----EEEEEEeCCCcccccccccccccCCc
Q 028305           13 LKVIVLGDSGV--GKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL----VTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus        13 ~~i~v~G~~~~--GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .-++|+|-.|+  ||.+|+++|....+.........+.+.  ...++++.    +.+.+.....  ++.--.........
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~h--gwtid~kyysadi~lcishicd--e~~lpn~~~a~pl~   80 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFH--GWTIDNKYYSADINLCISHICD--EKFLPNAEIAEPLQ   80 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeee--ceEecceeeecceeEEeecccc--hhccCCccccccee
Confidence            34789999999  999999999987776443333222222  22222222    2333332211  11111112223456


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +++++||++....+..+..|...-.-...     . -.+.++||.|...+
T Consensus        81 a~vmvfdlse~s~l~alqdwl~htdinsf-----d-illcignkvdrvph  124 (418)
T KOG4273|consen   81 AFVMVFDLSEKSGLDALQDWLPHTDINSF-----D-ILLCIGNKVDRVPH  124 (418)
T ss_pred             eEEEEEeccchhhhHHHHhhccccccccc-----h-hheecccccccccc
Confidence            89999999998888888888654321111     1 35678999998653

>PRK08118 topology modulation protein; Reviewed

Probab=97.64  E-value=4.9e-05  Score=52.89  Aligned_cols=23  Identities=35%  Similarity=0.577  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+|+|+|++|||||||.+.|...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999998743

>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=97.62  E-value=4.8e-05  Score=51.36  Aligned_cols=20  Identities=30%  Similarity=0.596  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |+++|+||||||||++.+..
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            78999999999999999873

...

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.62  E-value=0.00052  Score=53.56  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=19.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..-.++++|+.|+||||++.++.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA  227 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLG  227 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35568999999999999998876

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.61  E-value=4.8e-05  Score=53.37  Aligned_cols=23  Identities=26%  Similarity=0.706  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+|+|+|+|||||||+..+|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999865

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.61  E-value=0.00044  Score=58.64  Aligned_cols=154  Identities=14%  Similarity=0.086  Sum_probs=77.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC--C-cccceeeeEEEEE---------------EE-Ee-----------CCeEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS--Q-QYKATIGADFVTK---------------EL-QM-----------DDKLVT   62 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~--~-~~~~~~~~~~~~~---------------~~-~~-----------~~~~~~   62 (210)
                      --|+|+|+.|+||||.+.+|...-..  . ......+.+.+..               .+ ..           .-....
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            46899999999999999988743210  0 0001111111100               00 00           011235


Q ss_pred             EEEEeCCCcccc----ccccccc--ccCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           63 LQIWDTAGQERF----QSLGSAF--YRGADCCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        63 ~~i~D~~g~~~~----~~~~~~~--~~~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      +.++||+|....    .......  ....+-+++|.|.+.. +.+..+.   ..+.....     --+-=+|+||.|...
T Consensus       266 ~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~---~~f~~~~~-----~~i~glIlTKLDEt~  337 (767)
T PRK14723        266 LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVV---HAYRHGAG-----EDVDGCIITKLDEAT  337 (767)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHH---HHHhhccc-----CCCCEEEEeccCCCC
Confidence            899999993211    1111111  2235678899998743 3333332   22221100     013457799999764


Q ss_pred             CCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh-HHHH----HHHHHHHHhc
Q 028305          136 GSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI-DEAF----LCVAEIALKN  183 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v-~~~~----~~l~~~~~~~  183 (210)
                      .      .-.+..+....+ .++..++  +|.+| +++.    +.+++.++..
T Consensus       338 ~------~G~iL~i~~~~~-lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~~  381 (767)
T PRK14723        338 H------LGPALDTVIRHR-LPVHYVS--TGQKVPEHLELAQADELVDRAFAT  381 (767)
T ss_pred             C------ccHHHHHHHHHC-CCeEEEe--cCCCChhhcccCCHHHHHHHHhcc
Confidence            3      344455555555 6776663  45555 4332    3455556553

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.58  E-value=0.00084  Score=41.72  Aligned_cols=69  Identities=23%  Similarity=0.247  Sum_probs=43.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc-ccccccCCcEEEEEEE
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL-GSAFYRGADCCVLVYD   93 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-~~~~~~~~d~vi~v~d   93 (210)
                      +++.|..|+||||+...+...--...+          ....++    .+.++|+++....... .......+|.++++.+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~----------~v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGK----------RVLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC----------eEEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            678899999999999887633211111          111111    5889999986543321 1345567899999988


Q ss_pred             CCCh
Q 028305           94 VNVQ   97 (210)
Q Consensus        94 ~~~~   97 (210)
                      .+..
T Consensus        68 ~~~~   71 (99)
T cd01983          68 PEAL   71 (99)
T ss_pred             Cchh
Confidence            7643

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>TIGR00235 udk uridine kinase

Probab=97.58  E-value=8.6e-05  Score=53.58  Aligned_cols=29  Identities=24%  Similarity=0.328  Sum_probs=24.7

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |.++...-|+|+|++|||||||++.+.+.
T Consensus         1 ~~~~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         1 MDKPKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCCCCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            34667788999999999999999998753

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.57  E-value=0.0018  Score=50.42  Aligned_cols=21  Identities=43%  Similarity=0.611  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+|.|.-|||||||+++++..
T Consensus         7 ~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         7 TIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            678899999999999999854

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK07261 topology modulation protein; Provisional

Probab=97.57  E-value=6.3e-05  Score=52.55  Aligned_cols=21  Identities=33%  Similarity=0.607  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|+|++|||||||.+.|..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            799999999999999999864

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.57  E-value=0.0015  Score=53.47  Aligned_cols=90  Identities=16%  Similarity=0.210  Sum_probs=45.1

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCC-CEEEEEecCCCCCCCC--cc--cchH--HHHHHHHHcCCCcE
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC-PFVLLGNKIDTDGGSS--RV--VPQK--KALEWCAYRGNIPY  158 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~-p~ilv~~K~D~~~~~~--~~--~~~~--~~~~~~~~~~~~~~  158 (210)
                      --+|+|=|+-+.-.-+. ..+...+.++....   .. |+|+|++=+|......  +.  ...+  ...++....+ +..
T Consensus       133 ~kvILVEDlPN~~~~~~-~~f~~~L~~~l~~~---~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~-i~~  207 (519)
T PF03215_consen  133 KKVILVEDLPNVFHRDT-SRFREALRQYLRSS---RCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPG-ITR  207 (519)
T ss_pred             ceEEEeeccccccchhH-HHHHHHHHHHHHcC---CCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCC-ceE
Confidence            45677767655322222 34444444433322   33 9999999665432211  10  0111  1123333333 667


Q ss_pred             EEecCCCCCChHHHHHHHHHHH
Q 028305          159 FETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +....-...-+..++..|+..-
T Consensus       208 I~FNpIa~T~mkKaL~rI~~~E  229 (519)
T PF03215_consen  208 IKFNPIAPTFMKKALKRILKKE  229 (519)
T ss_pred             EEecCCCHHHHHHHHHHHHHHH
Confidence            7777666666666666666544

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.55  E-value=5.3e-05  Score=52.50  Aligned_cols=22  Identities=23%  Similarity=0.567  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ||+|.|.+++|||||++.|...
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

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=97.52  E-value=0.00029  Score=51.57  Aligned_cols=126  Identities=14%  Similarity=0.098  Sum_probs=80.5

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----------KTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                      .+++..+|.+|+.+.+..|...+..+.++|+|...+.-          ..+.+....++.++....   ...+.+|+++|
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRw---L~tisvIlFLN  277 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRW---LRTISVILFLN  277 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhH---HhhhheeEEec
Confidence            36799999999999999999999999999999988741          122222222333332211   11568999999


Q ss_pred             cCCCCCCC--------------------------Cccc----------chHHHHHHHHHcC----CCcEEEecCCCCCCh
Q 028305          130 KIDTDGGS--------------------------SRVV----------PQKKALEWCAYRG----NIPYFETSAKEDCNI  169 (210)
Q Consensus       130 K~D~~~~~--------------------------~~~~----------~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v  169 (210)
                      |.|+....                          +...          ..++........+    .+.+.++.|.+.+++
T Consensus       278 KqDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenI  357 (379)
T KOG0099|consen  278 KQDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENI  357 (379)
T ss_pred             HHHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHH
Confidence            99974320                          0000          1111111111111    133567889999999


Q ss_pred             HHHHHHHHHHHHhcccccc
Q 028305          170 DEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~~  188 (210)
                      +.+|......+.+.+.++.
T Consensus       358 rrVFnDcrdiIqr~hlrqy  376 (379)
T KOG0099|consen  358 RRVFNDCRDIIQRMHLRQY  376 (379)
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            9999999998888876543

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.52  E-value=0.0015  Score=52.34  Aligned_cols=90  Identities=18%  Similarity=0.173  Sum_probs=47.6

Q ss_pred             EEEEEEeCCCccccc----cccccccc---CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           61 VTLQIWDTAGQERFQ----SLGSAFYR---GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~----~~~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ..+.++||+|.....    .....++.   ...-+.+|++.+..  ...+...+..+..    .   + +--++.||.|.
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~----~---~-~~~vI~TKlDe  369 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSR----L---P-LDGLIFTKLDE  369 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCC----C---C-CCEEEEecccc
Confidence            568999999953321    11222233   23466778887542  1222232233211    0   2 23688999997


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      ...      ...+..++...+ .++..++  +|.+|
T Consensus       370 t~~------~G~i~~~~~~~~-lPv~yit--~Gq~V  396 (424)
T PRK05703        370 TSS------LGSILSLLIESG-LPISYLT--NGQRV  396 (424)
T ss_pred             ccc------ccHHHHHHHHHC-CCEEEEe--CCCCC
Confidence            543      234555666666 6766664  34444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.52  E-value=0.0022  Score=50.61  Aligned_cols=140  Identities=14%  Similarity=0.047  Sum_probs=71.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcC-----CCccccee--------------------eeEEEEEEEE-------eCC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKF-----SQQYKATI--------------------GADFVTKELQ-------MDD   58 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~-----~~~~~~~~--------------------~~~~~~~~~~-------~~~   58 (210)
                      .+..|+++|++|+||||.+.+|...-.     ........                    +..+......       -.-
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            356899999999999999987753210     00000001                    1111110000       011


Q ss_pred             eEEEEEEEeCCCcccccc----cccccccC--Cc-EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           59 KLVTLQIWDTAGQERFQS----LGSAFYRG--AD-CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        59 ~~~~~~i~D~~g~~~~~~----~~~~~~~~--~d-~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      ..+.+.++||+|......    ....++..  .+ -+++|.|.+..  ...+...+.....        --+-=+++||.
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~--------~~~~~~I~TKl  322 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSP--------FSYKTVIFTKL  322 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcC--------CCCCEEEEEec
Confidence            235689999999443211    11222222  23 68899998764  2223333333211        11456788999


Q ss_pred             CCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305          132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus       132 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      |....      .-.+..++...+ .++..+  .+|.+|
T Consensus       323 Det~~------~G~~l~~~~~~~-~Pi~yi--t~Gq~v  351 (388)
T PRK12723        323 DETTC------VGNLISLIYEMR-KEVSYV--TDGQIV  351 (388)
T ss_pred             cCCCc------chHHHHHHHHHC-CCEEEE--eCCCCC
Confidence            97543      344445555555 666555  345555

>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=97.49  E-value=0.00012  Score=42.94  Aligned_cols=21  Identities=24%  Similarity=0.523  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |++.|++|+||||+.+.|...
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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.49  E-value=0.00088  Score=54.15  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      --++|+|+.|+||||++..|..
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~  278 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAA  278 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHH
Confidence            4689999999999999998873

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.48  E-value=0.0014  Score=51.37  Aligned_cols=157  Identities=16%  Similarity=0.103  Sum_probs=77.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcC---CCcccceeeeEEEEEEE-----------------Ee----------CCeEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKF---SQQYKATIGADFVTKEL-----------------QM----------DDKLV   61 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~---~~~~~~~~~~~~~~~~~-----------------~~----------~~~~~   61 (210)
                      .-.|+++||.|+||||-+-+|...-.   .......++.|.+..-.                 ..          .-..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            56789999999999998876653222   11122222232221110                 00          01134


Q ss_pred             EEEEEeCCCcccccccc----cccccC--CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           62 TLQIWDTAGQERFQSLG----SAFYRG--ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~----~~~~~~--~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      .+.++||.|...+....    ..++..  ..-+-+|++.+..  ...+...+..+..    .   + .-=+++||.|...
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~----~---~-i~~~I~TKlDET~  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSL----F---P-IDGLIFTKLDETT  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhcc----C---C-cceeEEEcccccC
Confidence            68999999955433222    222222  3456667777643  2333333333321    1   2 2346779999654


Q ss_pred             CCCcccchHHHHHHHHHcCCCcEEEecC--CCCCChHHH-HHHHHHHHHhccc
Q 028305          136 GSSRVVPQKKALEWCAYRGNIPYFETSA--KEDCNIDEA-FLCVAEIALKNEH  185 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa--~~~~~v~~~-~~~l~~~~~~~~~  185 (210)
                      .      .-.........+ .++-.++.  .-.+++... -.+|++++.....
T Consensus       353 s------~G~~~s~~~e~~-~PV~YvT~GQ~VPeDI~va~~~~Lv~~~~g~~~  398 (407)
T COG1419         353 S------LGNLFSLMYETR-LPVSYVTNGQRVPEDIVVANPDYLVRRILGTFA  398 (407)
T ss_pred             c------hhHHHHHHHHhC-CCeEEEeCCCCCCchhhhcChHHHHHHHhcccc
Confidence            3      344444555454 55544432  223333322 2455666555444

>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=97.47  E-value=0.00083  Score=45.03  Aligned_cols=25  Identities=24%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .-.+++.|++|+|||+|++.+....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4469999999999999999988654

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.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.47  E-value=0.00014  Score=41.34  Aligned_cols=21  Identities=24%  Similarity=0.521  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+|.|+.|+|||||+.++..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998763

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.45  E-value=0.00015  Score=50.45  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ....-+.|+|++|||||||+.+++..
T Consensus         4 ~~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          4 TMIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CCceEEEEECCCCChHHHHHHHHHHH
Confidence            34557899999999999999999854

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.43  E-value=0.00011  Score=52.32  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++||.|||||||++.+-+-.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc
Confidence            58999999999999999876433

>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=97.43  E-value=0.00013  Score=53.44  Aligned_cols=27  Identities=30%  Similarity=0.742  Sum_probs=23.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -+.+|+++|+|++|||||+|+..++..
T Consensus        10 ~~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   10 LKDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999999998844

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.41  E-value=5.1e-05  Score=58.60  Aligned_cols=60  Identities=20%  Similarity=0.296  Sum_probs=0.0

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      +.....+-|.|+|.|++||||+||.|...... ...|-.+.+.....+..-.+   +.++|+||
T Consensus       302 h~dkkqISVGfiGYPNvGKSSiINTLR~KkVC-kvAPIpGETKVWQYItLmkr---IfLIDcPG  361 (572)
T KOG2423|consen  302 HSDKKQISVGFIGYPNVGKSSIINTLRKKKVC-KVAPIPGETKVWQYITLMKR---IFLIDCPG  361 (572)
T ss_pred             ccCccceeeeeecCCCCchHHHHHHHhhcccc-cccCCCCcchHHHHHHHHhc---eeEecCCC

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.41  E-value=0.0012  Score=41.99  Aligned_cols=82  Identities=18%  Similarity=0.171  Sum_probs=48.5

Q ss_pred             EEEEc-CCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           15 VIVLG-DSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        15 i~v~G-~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      |+|.| ..|+||||+...+...--. ...+.       ..+..+.. +.+.++|+|+.....  ....+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~v-------l~~d~d~~-~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKRV-------LLIDLDPQ-YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCcE-------EEEeCCCC-CCEEEEeCcCCCCHH--HHHHHHHCCEEEEecc
Confidence            56777 4599999998776521111 11111       11122222 568999999865332  2356778999999987


Q ss_pred             CCChhhHHHHHHHHH
Q 028305           94 VNVQKTFESLQNWRE  108 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~  108 (210)
                      .+ ..++.....+..
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            75 445555555544

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.

>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=97.38  E-value=0.00016  Score=47.87  Aligned_cols=21  Identities=29%  Similarity=0.523  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |++.|++|+|||++++.+...
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            689999999999999998854

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 ....

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.38  E-value=0.00017  Score=52.76  Aligned_cols=25  Identities=28%  Similarity=0.562  Sum_probs=21.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+++|+|+|+|||||||+.+.|..
T Consensus         4 ~~~mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          4 KGPLKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998863

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.38  E-value=0.00066  Score=45.12  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      --|++.|+.|+|||||++.+...
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            35899999999999999998855

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.

>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=97.35  E-value=0.00018  Score=48.14  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|+.|+|||||++.+.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            58999999999999999888643

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 ....

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.34  E-value=0.00016  Score=52.26  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -|+++||.|||||||+|-+-+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3789999999999999987643

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.33  E-value=0.00022  Score=47.50  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS   38 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~   38 (210)
                      -.++++|++|+|||++++.+...-..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            46899999999999999999865544

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.33  E-value=0.0016  Score=47.17  Aligned_cols=63  Identities=24%  Similarity=0.369  Sum_probs=38.1

Q ss_pred             EEEEEeCC-CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           62 TLQIWDTA-GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        62 ~~~i~D~~-g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      .+.++||- |-+.|.   ....+.+|.+|+|.|.+- .++....+. ..+.....     -.++.+|+||.|..
T Consensus       135 e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taeri-~~L~~elg-----~k~i~~V~NKv~e~  198 (255)
T COG3640         135 EVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAERI-KELAEELG-----IKRIFVVLNKVDEE  198 (255)
T ss_pred             cEEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHHH-HHHHHHhC-----CceEEEEEeeccch
Confidence            46666663 333222   344678999999999874 344443332 33333222     25899999999954

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.31  E-value=0.00024  Score=47.83  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .|+|+|+.|||||||+..|++.-
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998543

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.30  E-value=0.00029  Score=50.90  Aligned_cols=26  Identities=23%  Similarity=0.374  Sum_probs=23.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...+.|+|.|++|||||||.+.|...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999988753

>PF05729 NACHT: NACHT domain

Probab=97.29  E-value=0.00064  Score=46.84  Aligned_cols=22  Identities=23%  Similarity=0.527  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ++|.|++|+|||+++.++...-
T Consensus         3 l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            7899999999999999988543

>PRK06217 hypothetical protein; Validated

Probab=97.29  E-value=0.00023  Score=50.35  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+|+|+|.+|||||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998844

>PRK14530 adenylate kinase; Provisional

Probab=97.29  E-value=0.00023  Score=51.67  Aligned_cols=20  Identities=25%  Similarity=0.612  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      +|+|+|+|||||||+.+.|.
T Consensus         5 ~I~i~G~pGsGKsT~~~~La   24 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLA   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            79999999999999999886

>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=97.29  E-value=0.00022  Score=47.04  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|.|.+||||||+.+.|...
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            789999999999999998754

...

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.28  E-value=0.00022  Score=52.01  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      |+++|++|||||||++-+.+-.
T Consensus        32 vsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999877443

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.28  E-value=0.00037  Score=50.25  Aligned_cols=28  Identities=32%  Similarity=0.475  Sum_probs=23.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +.....-|+|+|++|||||||++.|...
T Consensus         9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          9 KPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3446677889999999999999999754

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.27  E-value=0.00025  Score=47.62  Aligned_cols=21  Identities=33%  Similarity=0.729  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999854

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.

>PRK03839 putative kinase; Provisional

Probab=97.26  E-value=0.00023  Score=50.13  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +|+|+|.|||||||+.++|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988743

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.25  E-value=0.00022  Score=49.69  Aligned_cols=25  Identities=32%  Similarity=0.565  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -.-+++.||.|+|||||+++|....
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458899999999999999999655

>PLN02200 adenylate kinase family protein

Probab=97.25  E-value=0.00036  Score=51.29  Aligned_cols=26  Identities=27%  Similarity=0.416  Sum_probs=22.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...++.|+|+|+|||||||+..+|..
T Consensus        40 ~~~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         40 EKTPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34568899999999999999998863

>PRK10646 ADP-binding protein; Provisional

Probab=97.25  E-value=0.0018  Score=44.05  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -|++-|+-|+|||||++.+...
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~   51 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQA   51 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998754

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.24  E-value=0.00067  Score=44.43  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .--|++-|+-|||||||++.+...
T Consensus        15 g~vi~L~GdLGaGKTtf~r~l~~~   38 (123)
T PF02367_consen   15 GDVILLSGDLGAGKTTFVRGLARA   38 (123)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            345899999999999999998743

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.24  E-value=0.0012  Score=47.39  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      |+|+|++||||||+++.+...-
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999887543

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>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=97.22  E-value=0.0045  Score=39.54  Aligned_cols=63  Identities=14%  Similarity=0.026  Sum_probs=40.3

Q ss_pred             EEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           62 TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                      .+.++|+|+....  .....+..+|.++++.+.+ ..+......+...+.+....   ....+.+|+|+
T Consensus        44 D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~s~~~~~~~~~~l~~~~~~---~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LPSIRNAKRLLELLRVLDYS---LPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hHHHHHHHHHHHHHHHcCCC---CcCceEEEecC
Confidence            5889999986533  2344677899999998765 45566666666666554221   02256677764

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.21  E-value=0.00028  Score=49.92  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..|+++|++||||||+++.|.
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999999987

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.21  E-value=0.0003  Score=49.46  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|++|||||||++.|...
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.

>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=97.20  E-value=0.00035  Score=46.93  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .|+++|++|+|||+|++.+...
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988743

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=97.20  E-value=0.00039  Score=48.91  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+-|+|.|++|||||||.++|...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            467899999999999999998853

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.20  E-value=0.00034  Score=49.59  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .|+|+|++|||||||++.|...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999654

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.20  E-value=0.0015  Score=50.28  Aligned_cols=25  Identities=32%  Similarity=0.573  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ..+|+|.|++|||||||++.|+..-
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999998643

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.19  E-value=0.0019  Score=48.37  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -|+|.|++||||||+++.++..-
T Consensus        82 lilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhh
Confidence            58999999999999999987543

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.18  E-value=0.00034  Score=50.09  Aligned_cols=21  Identities=29%  Similarity=0.523  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|.|++|||||||.+.|...
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998754

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.

>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=0.00036  Score=44.42  Aligned_cols=21  Identities=43%  Similarity=0.786  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            357999999999999999875

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

>PRK14531 adenylate kinase; Provisional

Probab=97.17  E-value=0.00036  Score=49.36  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+|+++|+|||||||+.+.|..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998863

>PRK14532 adenylate kinase; Provisional

Probab=97.17  E-value=0.00032  Score=49.76  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+++|+|||||||+..+|..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998863

>PRK13949 shikimate kinase; Provisional

Probab=97.17  E-value=0.0004  Score=48.44  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|+|++||||||+.+.|..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998763

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=97.17  E-value=0.0017  Score=50.50  Aligned_cols=27  Identities=22%  Similarity=0.384  Sum_probs=23.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      ...+|+|.|++|||||||++.|+..-.
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~i~  187 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISAIP  187 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHcccC
Confidence            357899999999999999999986543

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.17  E-value=0.00034  Score=49.21  Aligned_cols=22  Identities=32%  Similarity=0.640  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .|+|+|++|||||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4899999999999999999864

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.17  E-value=0.00039  Score=49.28  Aligned_cols=24  Identities=29%  Similarity=0.527  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.++++|++|||||||++.+.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            346899999999999999998854

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=97.14  E-value=0.00063  Score=53.23  Aligned_cols=24  Identities=42%  Similarity=0.661  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -+++++|.+|+|||||+|.|.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            378999999999999999998644

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.13  E-value=0.00038  Score=51.48  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++++||.|||||||++.+.+
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            368999999999999999875

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.12  E-value=0.0018  Score=50.20  Aligned_cols=27  Identities=22%  Similarity=0.320  Sum_probs=23.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      ...+|+|.|++|||||||++.|+..-.
T Consensus       159 ~~~nili~G~tgSGKTTll~aL~~~ip  185 (332)
T PRK13900        159 SKKNIIISGGTSTGKTTFTNAALREIP  185 (332)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHhhCC
Confidence            356899999999999999999985443

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=97.11  E-value=0.0019  Score=43.46  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .--|++-|+-|+|||||.+.+..+-
T Consensus        25 g~Vv~L~GdLGAGKTtf~rgi~~~L   49 (149)
T COG0802          25 GDVVLLSGDLGAGKTTLVRGIAKGL   49 (149)
T ss_pred             CCEEEEEcCCcCChHHHHHHHHHHc
Confidence            3458899999999999999987443

>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=97.10  E-value=0.00042  Score=50.49  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |++.|++|||||||++.|...
T Consensus         2 igI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHH
Confidence            689999999999999988753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.10  E-value=0.00051  Score=48.58  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+|+|+|+|||||||+.+.|..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998863

>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=97.09  E-value=0.0005  Score=48.24  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=19.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +--.++|+|+.|+|||||++.+.
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34468999999999999999875

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=97.08  E-value=0.00045  Score=49.94  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+++|+.|+|||||++.+-+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            489999999999999998875

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.07  E-value=0.00064  Score=49.87  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=23.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ...++-|+|.|++|||||||++.|.+.-
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999999888543

>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=97.06  E-value=0.00043  Score=49.25  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +|+|+|+|||||||+.+.|...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988743

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.06  E-value=0.0005  Score=48.51  Aligned_cols=20  Identities=40%  Similarity=0.557  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |+++|+|||||||+.++|..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998874

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.

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.06  E-value=0.0023  Score=49.24  Aligned_cols=25  Identities=32%  Similarity=0.630  Sum_probs=22.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-+|+|+|++|||||||++.|+..
T Consensus       147 ~~~~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        147 AHRNILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999864

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.05  E-value=0.00067  Score=51.32  Aligned_cols=25  Identities=16%  Similarity=0.212  Sum_probs=21.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...++-|+|.|++|||||||++.+.
T Consensus        59 ~~~p~IIGIaG~~GSGKSTlar~L~   83 (290)
T TIGR00554        59 AKIPYIISIAGSVAVGKSTTARILQ   83 (290)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3567899999999999999998764

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.05  E-value=0.00039  Score=46.56  Aligned_cols=25  Identities=28%  Similarity=0.526  Sum_probs=22.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....+|+|.|-||+|||||..++..
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHH
Confidence            5678999999999999999999873

>PTZ00301 uridine kinase; Provisional

Probab=97.04  E-value=0.00065  Score=49.05  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=20.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +.+-|+|.|++|||||||.++|.
T Consensus         2 ~~~iIgIaG~SgSGKTTla~~l~   24 (210)
T PTZ00301          2 PCTVIGISGASGSGKSSLSTNIV   24 (210)
T ss_pred             CCEEEEEECCCcCCHHHHHHHHH
Confidence            34779999999999999998775

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.04  E-value=0.00073  Score=47.89  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=21.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ...=|+|+||+|||||||+++|+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            34558999999999999999998643

>TIGR01351 adk adenylate kinases

Probab=97.04  E-value=0.00045  Score=49.99  Aligned_cols=21  Identities=24%  Similarity=0.512  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|+|+|||||||+..+|..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998863

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.

>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=97.04  E-value=0.00057  Score=47.97  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            68999999999999999888653

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.03  E-value=0.00078  Score=47.09  Aligned_cols=27  Identities=30%  Similarity=0.482  Sum_probs=23.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...+..|+|.|++|||||||.+.|...
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            466788999999999999999998754

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.03  E-value=0.00055  Score=50.43  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++++||.|+|||||++.+++
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999986

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=97.02  E-value=0.00066  Score=47.29  Aligned_cols=22  Identities=41%  Similarity=0.558  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      =.++++|+.|+|||||+|-+.+
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAG   47 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAG   47 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHh
Confidence            3689999999999999997664

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	210
1vg1_A	185	Gdp-bound Rab7 Length = 185		3e-65
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		4e-65
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		7e-65
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		3e-64
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		6e-58
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-48
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-48
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-48
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		1e-47
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		7e-33
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		4e-32
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-31
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		1e-31
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		1e-31
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		1e-31
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-31
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		2e-31
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-31
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-31
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		3e-31
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-31
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		6e-31
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		6e-31
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		9e-31
4fmc_B	171	Espg-Rab1 Complex Length = 171		9e-31
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		9e-31
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		9e-31
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-30
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-30
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-30
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-30
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		4e-30
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		7e-30
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-29
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-29
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-29
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-29
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		4e-29
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-29
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		6e-29
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		6e-29
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		7e-29
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		7e-29
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		1e-28
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-28
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		1e-28
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		1e-28
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-28
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-28
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		1e-28
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-28
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-28
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		3e-28
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		3e-28
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		3e-28
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		5e-28
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		6e-28
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		9e-28
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		9e-28
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		9e-28
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-27
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		1e-27
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-27
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		5e-27
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		7e-27
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		8e-27
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		1e-26
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		1e-26
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		1e-26
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-26
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-26
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		3e-26
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		3e-26
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		4e-26
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-26
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		5e-26
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		9e-26
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-25
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-25
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		2e-25
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		2e-25
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		2e-25
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-25
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-25
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		4e-25
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		4e-25
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		4e-25
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		5e-25
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		7e-25
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		1e-24
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		1e-24
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		1e-24
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		2e-24
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-24
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-24
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		8e-24
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-23
4fmc_F	117	Espg-Rab1 Complex Length = 117		2e-23
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-23
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-22
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		5e-22
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		5e-21
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		5e-21
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		6e-21
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		6e-21
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		7e-21
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		7e-21
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-21
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		7e-21
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		1e-20
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		1e-20
2bku_A	177	Kap95p:rangtp Complex Length = 177		1e-20
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		2e-20
1byu_A	216	Canine Gdp-Ran Length = 216		2e-20
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		2e-20
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		2e-20
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-20
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-20
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		3e-20
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		3e-20
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		3e-20
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		3e-20
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		3e-20
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		4e-20
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		5e-20
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		6e-20
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		6e-20
3icq_B	171	Karyopherin Nuclear State Length = 171		6e-20
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-19
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-19
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		2e-19
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		2e-19
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		2e-19
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-19
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-19
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-19
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		5e-17
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		9e-17
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		9e-17
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		1e-16
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		3e-16
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		4e-16
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		7e-16
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		8e-16
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-15
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		1e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		1e-15
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		2e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		2e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		2e-15
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-15
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		3e-15
1wq1_R	166	Ras-Rasgap Complex Length = 166		3e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		3e-15
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		3e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		3e-15
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		3e-15
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		3e-15
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		3e-15
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-15
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		4e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		4e-15
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		5e-15
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		5e-15
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		7e-15
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		7e-15
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-15
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		8e-15
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		8e-15
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		8e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		8e-15
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-15
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		1e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		2e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		2e-14
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		2e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		2e-14
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		2e-14
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-14
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		2e-14
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		3e-14
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		3e-14
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		3e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		4e-14
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-14
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		7e-14
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-13
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		3e-13
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		4e-13
1mh1_A	186	Small G-Protein Length = 186		9e-12
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		9e-12
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		1e-11
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		1e-11
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		1e-11
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		1e-11
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		1e-11
1s1c_A	183	Crystal Structure Of The Complex Between The Human		1e-11
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		1e-11
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		1e-11
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		1e-11
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		1e-11
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		1e-11
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-11
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-11
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-11
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-11
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-11
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-11
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		3e-11
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		3e-11
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		3e-11
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		3e-11
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		3e-11
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		3e-11
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		3e-11
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		3e-11
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		4e-11
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		4e-11
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		4e-11
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		4e-11
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		4e-11
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		4e-11
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		5e-11
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		5e-11
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		6e-11
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		6e-11
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		6e-11
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		6e-11
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		6e-11
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		7e-11
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		7e-11
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		7e-11
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		7e-11
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		7e-11
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		8e-11
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		8e-11
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		8e-11
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		8e-11
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		9e-11
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		9e-11
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		9e-11
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		9e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		9e-11
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-10
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-10
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-10
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		1e-10
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-10
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-10
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		2e-10
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		2e-10
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-10
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		2e-10
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-10
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		2e-10
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		2e-10
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		2e-10
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-10
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		2e-10
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-10
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		2e-10
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		3e-10
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		3e-10
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		3e-10
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		3e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		3e-10
2kb0_A	178	Cdc42(T35a) Length = 178		3e-10
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		3e-10
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		4e-10
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		4e-10
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		5e-10
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-09
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		5e-09
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		7e-09
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		8e-09
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		9e-09
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		1e-08
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-08
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-08
3ihw_A	184	Crystal Structure Of The Ras-Like Domain Of Centg3		6e-08
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		3e-07
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		3e-07
2bmj_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		4e-07
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		6e-07
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		2e-06
4bas_A	199	Structure Of The Arl6 Bbs3 Small Gtpase From Trypan		3e-06
2iwr_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		4e-06
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		8e-06
3dpu_A	535	Roccor Domain Tandem Of Rab Family Protein (Roco) L		1e-05
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-05
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		3e-05
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		5e-05
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		5e-05
1g7s_A	594	X-Ray Structure Of Translation Initiation Factor If		5e-05
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		1e-04
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		1e-04
1g7r_A	594	X-Ray Structure Of Translation Initiation Factor If		2e-04
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		3e-04
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		3e-04
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		3e-04
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		3e-04
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		3e-04
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		3e-04
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		3e-04
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		4e-04
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		5e-04
3qq5_A	423	Crystal Structure Of The [fefe]-Hydrogenase Maturat		9e-04

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  244 bits (623), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 117/177 (66%), Positives = 141/177 (79%), Gaps = 3/177 (1%)
Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63
Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           GNKID +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E
Sbjct: 124 GNKIDLE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE 177

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  243 bits (621), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 122/205 (59%), Positives = 151/205 (73%), Gaps = 5/205 (2%)
Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63
Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           GNKID +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E + 
Sbjct: 124 GNKIDLE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180
Query: 188 IYYQ--PQGISETVSEVEQRGGCAC 210
             Y   P+ I    +E  +    +C
Sbjct: 181 ELYNEFPEPIKLDKNERAKASAESC 205

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  243 bits (619), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 117/177 (66%), Positives = 141/177 (79%), Gaps = 3/177 (1%)
Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63
Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAGQERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV+L
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           GNKID +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E
Sbjct: 124 GNKIDFE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE 177

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  241 bits (614), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 116/177 (65%), Positives = 140/177 (79%), Gaps = 3/177 (1%)
Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWD 67
           +++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QIWD
Sbjct: 4   RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWD 63
Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAG ERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV+L
Sbjct: 64  TAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           GNKID +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E
Sbjct: 124 GNKIDLE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE 177

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  219 bits (559), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 106/176 (60%), Positives = 137/176 (77%), Gaps = 2/176 (1%)
Query: 8   KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIW 66
           +++N+LKVI+LGDSGVGKTSLM++YV +K+SQQYKATIGADF+TKE+ +D DK+ T+Q+W
Sbjct: 4   RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVW 63
Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAGQERFQSLG AFYRGADCCVLVYDV    +FE++++WR+EFL  A+    E  PFV+
Sbjct: 64  DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVI 123
Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           LGNKID +  S ++V +K A E     G+IP F TSAK   N+D AF  +A  AL+
Sbjct: 124 LGNKIDAE-ESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 178

>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 =  188 bits (478), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 89/165 (53%), Positives = 120/165 (72%), Gaps = 3/165 (1%)
Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           + +L KVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VT+QIWDT
Sbjct: 6   KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDT 65
Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LG
Sbjct: 66  AGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILG 125
Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           NKID    S R V  ++A  WC   G+ PYFETSAK+  N+  AF
Sbjct: 126 NKIDI---SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 167

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  188 bits (478), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 89/165 (53%), Positives = 120/165 (72%), Gaps = 3/165 (1%)
Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           + +L KVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VT+QIWDT
Sbjct: 4   KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDT 63
Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LG
Sbjct: 64  AGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILG 123
Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           NKID    S R V  ++A  WC   G+ PYFETSAK+  N+  AF
Sbjct: 124 NKIDI---SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 165

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  187 bits (475), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 89/162 (54%), Positives = 120/162 (74%), Gaps = 3/162 (1%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           LLKVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ ++L++D + VTLQIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+SL + FYRGADCC+L + V+ +++FE+L NW++EF+  AD  + E  PFV+LGNK+
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    R V  ++A  WC   G+ PY ETSAK+D N+  AF
Sbjct: 127 DKE---DRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAF 165

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  185 bits (470), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 86/165 (52%), Positives = 118/165 (71%), Gaps = 3/165 (1%)
Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           + +L K+I+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VT+QIWDT
Sbjct: 8   KSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDT 67
Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LG
Sbjct: 68  AGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILG 127
Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           NK D      R V  ++A  WC   G+ PYFETSAK+  N+  AF
Sbjct: 128 NKTDI---KERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAF 169

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 67/162 (41%), Positives = 107/162 (66%), Gaps = 7/162 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 64
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++ + SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 65  ERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNK- 119
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            +D    R VP  +A  + A + N+ + ETSA +  N++EAF
Sbjct: 120 -SDLRHLRAVPTDEARAF-AEKNNLSFIETSALDSTNVEEAF 159

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  134 bits (337), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 70/181 (38%), Positives = 113/181 (62%), Gaps = 8/181 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +L K++++GDSGVGK+SL+ ++  N FS  Y  TIG DF  + ++++ + V LQIWDTAG
Sbjct: 8   HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAG 67
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ S +YRG    ++VYDV   ++F +++ W  E  +  D    + C  +L+GNK
Sbjct: 68  QERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD----DVCR-ILVGNK 122
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYY 190
              D    +VV  + A ++    G I  FETSAKE+ N++E F C+ E+ L+ +  ++  
Sbjct: 123 --NDDPERKVVETEDAYKFAGQMG-IQLFETSAKENVNVEEMFNCITELVLRAKKDNLAK 179
Query: 191 Q 191
           Q
Sbjct: 180 Q 180

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  132 bits (333), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 110/169 (65%), Gaps = 8/169 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQ+WDTAG
Sbjct: 19  SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAG 78
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYDV  ++TF +++ W     K  +   ++    +L+GNK
Sbjct: 79  QERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQW----FKTVNEHANDEAQLLLVGNK 134
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            D +   +RVV   +  E  A    IP+ E+SAK D N++E F  +A++
Sbjct: 135 SDME---TRVVTADQG-EALAKELGIPFIESSAKNDDNVNEIFFTLAKL 179

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  132 bits (333), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 110/169 (65%), Gaps = 8/169 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQIWDTAG
Sbjct: 2   SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG 61
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYD+  ++TF +++ W     K  +   ++    +L+GNK
Sbjct: 62  QERFRTITTAYYRGAMGIILVYDITDERTFTNIKQW----FKTVNEHANDEAQLLLVGNK 117
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            D +   +RVV   +  E  A    IP+ E+SAK D N++E F  +A++
Sbjct: 118 SDME---TRVVTADQG-EALAKELGIPFIESSAKNDDNVNEIFFTLAKL 162

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/165 (39%), Positives = 106/165 (64%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 88
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNK- 143
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 144 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 186

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/165 (39%), Positives = 106/165 (64%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 20  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 79
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 80  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNK- 134
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 135 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 177

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 110/169 (65%), Gaps = 8/169 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQ+WDTAG
Sbjct: 6   SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAG 65
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYDV  ++TF +++ W     K  +   ++    +L+GNK
Sbjct: 66  QERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQW----FKTVNEHANDEAQLLLVGNK 121
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            D +   +RVV   +  E  A    IP+ E+SAK D N++E F  +A++
Sbjct: 122 SDME---TRVVTADQG-EALAKELGIPFIESSAKNDDNVNEIFFTLAKL 166

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 109/169 (64%), Gaps = 8/169 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++ K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQIWDTAG
Sbjct: 2   SIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG 61
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYD+  ++TF +++ W     K  +   ++    +L+GNK
Sbjct: 62  QERFRTITTAYYRGAXGIILVYDITDERTFTNIKQW----FKTVNEHANDEAQLLLVGNK 117
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            D +   +RVV   +  E  A    IP+ E+SAK D N++E F  +A++
Sbjct: 118 SDXE---TRVVTADQG-EALAKELGIPFIESSAKNDDNVNEIFFTLAKL 162

>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 =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 110/166 (66%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q+++ +++ W    L++ D    E    +L+GNK 
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQW----LQEIDRYASENVNKLLVGNK- 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +D  + +VV    A E+    G IP+ ETSAK   N+++AF+ +A
Sbjct: 124 -SDLTTKKVVDNTTAKEFADSLG-IPFLETSAKNATNVEQAFMTMA 167

>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 =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 110/166 (66%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 68
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q+++ +++ W    L++ D    E    +L+GNK 
Sbjct: 69  ERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQW----LQEIDRYASENVNKLLVGNK- 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +D  + +VV    A E+    G IP+ ETSAK   N+++AF+ +A
Sbjct: 124 -SDLTTKKVVDNTTAKEFADSLG-IPFLETSAKNATNVEQAFMTMA 167

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 109/169 (64%), Gaps = 8/169 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++ K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQ+WDTAG
Sbjct: 2   SIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAG 61
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYDV  ++TF +++ W     K  +   ++    +L+GNK
Sbjct: 62  QERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQW----FKTVNEHANDEAQLLLVGNK 117
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            D +   +RVV   +  E  A    IP+ E+SAK D N++E F  +A++
Sbjct: 118 SDXE---TRVVTADQG-EALAKELGIPFIESSAKNDDNVNEIFFTLAKL 162

>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 =  130 bits (328), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 67/174 (38%), Positives = 113/174 (64%), Gaps = 7/174 (4%)
Query: 4   SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL 63
           S+N +   L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + L
Sbjct: 8   SMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKL 67
Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP 123
           QIWDTAGQERF+++ S++YRGA   ++VYDV  Q++F +++ W +E  + A     E   
Sbjct: 68  QIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYA----SENVN 123
Query: 124 FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +L+GNK D    + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 124 KLLVGNKCDLT--TKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 174

>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 =  130 bits (327), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 67/174 (38%), Positives = 112/174 (64%), Gaps = 7/174 (4%)
Query: 4   SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL 63
           S+N +   L K++++GDSGVGK  L+ ++  + +++ Y +TIG DF  + +++D K + L
Sbjct: 8   SMNPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKL 67
Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP 123
           QIWDTAGQERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E   
Sbjct: 68  QIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVN 123
Query: 124 FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +L+GNK D    + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 124 KLLVGNKCDLT--TKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 174

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  130 bits (326), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 105/165 (63%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAG 
Sbjct: 8   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 68  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNK- 122
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 123 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 165

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 109/166 (65%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+GNK 
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVGNKC 121
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D    + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 122 DL--TTKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 164

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 109/166 (65%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 65
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+GNK 
Sbjct: 66  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVGNKC 121
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D    + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 122 DL--TTKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 164

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 109/166 (65%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 25  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 84
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+GNK 
Sbjct: 85  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVGNKC 140
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D    + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 141 DLT--TKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 183

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 105/165 (63%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAG 
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 88
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNK- 143
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 144 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 186

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 104/165 (63%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAG 
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 64
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD          L+GNK 
Sbjct: 65  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIXLVGNK- 119
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 120 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 162

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 104/165 (63%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAG 
Sbjct: 11  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 70
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD          L+GNK 
Sbjct: 71  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIXLVGNK- 125
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D    R VP  +A  +    G + + ETSA +  N++ AF  +
Sbjct: 126 -SDLRHLRAVPTDEARAFAEKNG-LSFIETSALDSTNVEAAFQTI 168

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/164 (39%), Positives = 108/164 (65%), Gaps = 7/164 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+GNK D 
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVGNKCDL 116
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
              + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 117 --TTKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 157

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  127 bits (320), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 67/174 (38%), Positives = 110/174 (63%), Gaps = 7/174 (4%)
Query: 4   SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL 63
           S N +   L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + L
Sbjct: 25  SXNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKL 84
Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP 123
           QIWDTAGQERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E   
Sbjct: 85  QIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVN 140
Query: 124 FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +L+GNK D    + +VV    A E+    G IP+ ETSAK   N++++F   A
Sbjct: 141 KLLVGNKCDLT--TKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFXTXA 191

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  127 bits (320), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 63/163 (38%), Positives = 109/163 (66%), Gaps = 8/163 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAG 70
           L K++++GDSGVGK++L++++  ++F+ + K+TIG +F TK +Q+ ++K++  QIWDTAG
Sbjct: 7   LFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAG 66
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QER++++ SA+YRGA   +LVYD+  + +FE+++ W +E    AD         +L+GNK
Sbjct: 67  QERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSN----IVILLVGNK 122
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
             +D    RV+    A ++ A +  + + ETSA E  N++ AF
Sbjct: 123 --SDLKHLRVINDNDATQY-AKKEKLAFIETSALEATNVELAF 162

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  126 bits (317), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 66/171 (38%), Positives = 105/171 (61%), Gaps = 6/171 (3%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L+VI++G  GVGKTSLM ++  + F +  K+T+G DF  K +++  K + LQIWDTAGQE
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF S+ SA+YR A   +LVYD+  ++TF+ L  W    +K  D    E    +L+GNK+D
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKW----MKMIDKYASEDAELLLVGNKLD 142
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            +  + R + +++  ++      + + E SAK++ N+DE FL + +  LK 
Sbjct: 143 CE--TDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK 191

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 66/176 (37%), Positives = 110/176 (62%), Gaps = 7/176 (3%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  Q+TF   + W +E  +QA P    +    L GNK D
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASP----SIVIALAGNKAD 124
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDI 188
               + R+V  ++A  + A   ++ + ETSAK   N+++ FL +A+   K+E +++
Sbjct: 125 L--ANKRMVEYEEAQAY-ADDNSLLFMETSAKTAMNVNDLFLAIAKKLPKSEPQNL 177

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  125 bits (315), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 108/166 (65%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+G  I
Sbjct: 68  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVG--I 121
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
             D  + +VV    A E+    G IP+ ETSAK   N++++F+ +A
Sbjct: 122 KCDLTTKKVVDYTTAKEFADSLG-IPFLETSAKNATNVEQSFMTMA 166

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 65/170 (38%), Positives = 107/170 (62%), Gaps = 8/170 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K++V+G+  VGK+S++ +Y    F++ YK TIG DF+ +++Q++D+ V L +WDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            F ++  A+YRGA  CVLV+    +++FE++ +WRE+ +  A+ G+    P  L+ NKID
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVV--AEVGD---IPTALVQNKID 120
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
               S     + +  E  A R  + ++ TS KED N+ E F  +AE  L+
Sbjct: 121 LLDDSC---IKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 62/166 (37%), Positives = 106/166 (63%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGKT ++ ++  + F+  + +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 65
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYD+  +K+F++++NW    ++  +         ++LGNK 
Sbjct: 66  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNW----IRNIEEHASADVEKMILGNKC 121
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D +    R V +++  E  A    I + ETSAK + N++ AF  +A
Sbjct: 122 DVN--DKRQVSKERG-EKLALDYGIKFMETSAKANINVENAFFTLA 164

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  124 bits (311), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 101/166 (60%), Gaps = 7/166 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+    TF   +NW +E  +QA P         L GNK D
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN----IVIALAGNKAD 119
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               S R V  ++A  + A   ++ + ETSAK   N++E F+ +A+
Sbjct: 120 L--ASKRAVEFQEAQAY-ADDNSLLFMETSAKTAMNVNEIFMAIAK 162

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  124 bits (310), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 63/167 (37%), Positives = 106/167 (63%), Gaps = 7/167 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGKT ++ ++  + F+  + +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYD+  +K+F++++NW     + A     +    ++LGNK 
Sbjct: 68  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEK----MILGNKC 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D +    R V +++  E  A    I + ETSAK + N++ AF  +A 
Sbjct: 124 DVN--DKRQVSKERG-EKLALDYGIKFMETSAKANINVENAFFTLAR 167

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  123 bits (309), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 123
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 124 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 171

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  123 bits (309), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  123 bits (309), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 72/195 (36%), Positives = 118/195 (60%), Gaps = 13/195 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G+SGVGK+ L+ ++  + ++  Y +TIG DF  K +++D K V LQIWDTAGQ
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRG+   ++VYDV  Q++F  ++ W    L++ D         +L+GNK 
Sbjct: 68  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMW----LQEIDRYATSTVLKLLVGNKC 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D      RVV    A E+ A    +P+ ETSA +  N+++AFL +A      + K+   Q
Sbjct: 124 DLK--DKRVVEYDVAKEF-ADANKMPFLETSALDSTNVEDAFLTMAR-----QIKESMSQ 175
Query: 192 PQGISETVSEVEQRG 206
            Q ++ET  + E +G
Sbjct: 176 -QNLNETTQKKEDKG 189

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  123 bits (309), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 75/213 (35%), Positives = 120/213 (56%), Gaps = 28/213 (13%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G+SGVGK+ L+ ++  + ++  Y +TIG DF  K +++D K V LQIWDTAGQ
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRG+   ++VYDV  Q++F  ++ W    L++ D         +L+GNK 
Sbjct: 68  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMW----LQEIDRYATSTVLKLLVGNKC 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-------------E 178
           D      RVV    A E+ A    +P+ ETSA +  N+++AFL +A             E
Sbjct: 124 DLK--DKRVVEYDVAKEF-ADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 180
Query: 179 IALKNEHK-DIYYQPQGISETVSEVEQRGGCAC 210
              K E K ++  + Q ++ T       GGC C
Sbjct: 181 TTQKKEDKGNVNLKGQSLTNT-------GGCCC 206

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 105/166 (63%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + ++  Y +TIG DF  + + +++K V LQIWDTAGQ
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQ 68
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  + +F++++ W +E  + A     E    +L+GNK 
Sbjct: 69  ERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYA----MENVNKLLVGNKC 124
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D    S RVV   +  E     G I + ETSAK   N+++AF  +A
Sbjct: 125 DL--VSKRVVTSDEGRELADSHG-IKFIETSAKNAYNVEQAFHTMA 167

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 70/184 (38%), Positives = 106/184 (57%), Gaps = 19/184 (10%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D K + LQIWDTAGQ
Sbjct: 21  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ 80
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV--LLGN 129
           E F+S+  ++YRGA   +LVYD+  ++TF  L +W E      D  +H +   V  L+GN
Sbjct: 81  ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLE------DARQHSSSNMVIMLIGN 134
Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIY 189
           K D +   SR   +++  E  A    + + ETSAK  CN++EAF+        N  K+IY
Sbjct: 135 KSDLE---SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFI--------NTAKEIY 183
Query: 190 YQPQ 193
            + Q
Sbjct: 184 RKIQ 187

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 61/162 (37%), Positives = 105/162 (64%), Gaps = 7/162 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK++L++++  N+F+   K+TIG +F T+ L+++ K +  QIWDTAGQ
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ 72
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   ++VYD++   ++E+  +W  E  + AD    +     L+GNK 
Sbjct: 73  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENAD----DNVAVGLIGNK- 127
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            +D    R VP +++  + A    + + ETSA    N+D+AF
Sbjct: 128 -SDLAHLRAVPTEESKTF-AQENQLLFTETSALNSENVDKAF 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 105/166 (63%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G+SGVGK+ L+ ++  + ++  Y +TIG DF  K +++D K V LQIWDTAGQ
Sbjct: 21  LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 80
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRG+   ++VYDV  Q++F  ++ W    L++ D         +L+GNK 
Sbjct: 81  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMW----LQEIDRYATSTVLKLLVGNKC 136
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D      RVV    A E+ A    +P+ ETSA +  N+++AFL +A
Sbjct: 137 DLK--DKRVVEYDVAKEF-ADANKMPFLETSALDSTNVEDAFLTMA 179

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 105/171 (61%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 123 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 104/171 (60%), Gaps = 7/171 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 123
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               + R V  ++A  + A   ++ + ETSAK   N++E F  +A+   KN
Sbjct: 124 L--ANKRAVDFQEAQSY-ADDNSLLFXETSAKTSXNVNEIFXAIAKKLPKN 171

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 100/166 (60%), Gaps = 7/166 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+    TF   +NW +E  +QA P         L GNK D
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN----IVIALAGNKAD 121
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               S R V  ++A  + A   ++ + ETSAK   N++E F+ +A+
Sbjct: 122 L--ASKRAVEFQEAQAY-ADDNSLLFMETSAKTAMNVNEIFMAIAK 164

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 100/166 (60%), Gaps = 7/166 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TI A F+T+ + +DD  V  +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+    TF   +NW +E  +QA P         L GNK D
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN----IVIALAGNKAD 121
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               S R V  ++A  + A   ++ + ETSAK   N++E F+ +A+
Sbjct: 122 L--ASKRAVEFQEAQAY-ADDNSLLFMETSAKTAMNVNEIFMAIAK 164

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  120 bits (301), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 63/177 (35%), Positives = 113/177 (63%), Gaps = 9/177 (5%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK++L++++  ++F+ + K+TIG +F T+ +++++K +  QIWDTAG 
Sbjct: 10  LFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGL 69
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   ++VYD++   ++E+  +W  E  + AD    +     L+GNK 
Sbjct: 70  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENAD----DNVAVGLIGNK- 124
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF--LCVAEIALKNEHK 186
            +D    R VP  +A  + A    + + ETSA    N+D+AF  L VA   + ++H+
Sbjct: 125 -SDLAHLRAVPTDEAKNF-AMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSKHQ 179

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 65/173 (37%), Positives = 107/173 (61%), Gaps = 9/173 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K+++LG++ VGK+S++ ++V N F++  + TIGA F+T+ + +++  V  +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF SL   +YR A   ++VYDV   ++F   ++W +E  +QA     +     L+GNKID
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS----KDIIIALVGNKID 119
Query: 133 T--DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE-IALK 182
              +GG  +V  ++   E  A    + +FETSAK   N+++ FL + E I LK
Sbjct: 120 XLQEGGERKVAREEG--EKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  119 bits (299), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 64/166 (38%), Positives = 103/166 (62%), Gaps = 7/166 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G++GVGKT L+ ++    F     ATIG DF+ K ++++ + V LQIWDTAGQ
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ 85
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YR A+  +L YD+  +++F  L  W    L++ +         VL+GNKI
Sbjct: 86  ERFRSITQSYYRSANALILTYDITCEESFRCLPEW----LREIEQYASNKVITVLVGNKI 141
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D      R V Q++A E+   + ++ Y ETSAKE  N+++ FL +A
Sbjct: 142 DL--AERREVSQQRAEEFSEAQ-DMYYLETSAKESDNVEKLFLDLA 184

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  119 bits (299), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 68/167 (40%), Positives = 103/167 (61%), Gaps = 8/167 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
            KV+++GDSGVGKT L+ ++    F +  + +T+G DF  K L +D   V LQ+WDTAGQ
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ 70
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  A+YR A   +L+YDV  + +F+++Q W  E  + A   +H+    +LLGNK+
Sbjct: 71  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYA---QHD-VALMLLGNKV 126
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D+     RVV ++   E  A    +P+ ETSAK   N+D AF  +A+
Sbjct: 127 DS--AHERVVKREDG-EKLAKEYGLPFMETSAKTGLNVDLAFTAIAK 170

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  119 bits (299), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 62/166 (37%), Positives = 102/166 (61%), Gaps = 7/166 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R+ SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKAD 121
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+
Sbjct: 122 L--ANKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAK 164

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  119 bits (298), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 70/161 (43%), Positives = 94/161 (58%), Gaps = 7/161 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV +LGD+GVGK+S++ ++V + F      TIGA F+TK +   ++L    IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF SL   +YRG+   V+VYD+  Q +F +L+ W +E LK+  P   E     + GNK D
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKE-LKEHGP---ENIVMAIAGNKCD 139
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                 R VP K A E+    G I   ETSAK   NI+E F
Sbjct: 140 LS--DIREVPLKDAKEYAESIGAI-VVETSAKNAINIEELF 177

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  119 bits (298), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 66/162 (40%), Positives = 102/162 (62%), Gaps = 7/162 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            KV++LG+  VGKTSL+ +Y  NKF+ ++  T+GA F+TK+L +  K V L IWDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF +LG  +YR ++  +LVYD+  + +F+ ++NW +E  K      +E C   ++GNKID
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG---NEIC-LCIVGNKID 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
            +    R V  ++A  +    G   ++ TSAK++  I+E FL
Sbjct: 123 LE--KERHVSIQEAESYAESVG-AKHYHTSAKQNKGIEELFL 161

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  118 bits (295), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 66/169 (39%), Positives = 97/169 (57%), Gaps = 11/169 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D K + LQIWDTAGQ
Sbjct: 10  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ 69
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV--LLGN 129
           E F+S+  ++YRGA   +LVYD+  + TF  L  W E      D  +H     V  L+GN
Sbjct: 70  ESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLE------DARQHSNSNMVIMLIGN 123
Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           K D +   SR   +K+  E  A    + + ETSAK   N++EAF+  A+
Sbjct: 124 KSDLE---SRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAK 169

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  117 bits (293), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 100/166 (60%), Gaps = 9/166 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV +LGD+GVGK+S++ ++V + F      TIGA F+TK +Q  ++L    IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L   +YRG+   ++VYD+  ++TF +L+NW  E  +   P    +    + GNK D
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPP----SIVVAIAGNKCD 121
Query: 133 -TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            TD    R V ++ A ++      I + ETSAK   NI+E F+ ++
Sbjct: 122 LTD---VREVMERDAKDYADSIHAI-FVETSAKNAININELFIEIS 163

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  116 bits (291), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 101/165 (61%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + KV+++G+SGVGKT+L++++  N+FS   + TIG +F T+ + +    V  QIWDTAG 
Sbjct: 10  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL 69
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LV+D+   +T+  ++ W +E    A+         +L+GNK 
Sbjct: 70  ERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEA----TIVVMLVGNK- 124
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D   +R VP ++A  +    G + + ETSA +  N++ AF  V
Sbjct: 125 -SDLSQAREVPTEEARMFAENNG-LLFLETSALDSTNVELAFETV 167

>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 =  116 bits (291), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 99/166 (59%), Gaps = 9/166 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV +LGD+GVGK+S+M ++V + F      TIGA F+TK +Q  ++L    IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L   +YRG+   ++VYD+  ++TF +L+NW  E  +   P    +    + GNK D
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPP----SIVVAIAGNKCD 122
Query: 133 -TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            TD    R V ++ A ++      I + ETSAK   NI+E F+ ++
Sbjct: 123 LTD---VREVMERDAKDYADSIHAI-FVETSAKNAININELFIEIS 164

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 65/162 (40%), Positives = 101/162 (62%), Gaps = 7/162 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            KV++LG+  VGKTSL+ +Y  NKF+ ++  T+ A F+TK+L +  K V L IWDTAGQE
Sbjct: 21  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 80
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF +LG  +YR ++  +LVYD+  + +F+ ++NW +E  K      +E C   ++GNKID
Sbjct: 81  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG---NEIC-LCIVGNKID 136
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
            +    R V  ++A  +    G   ++ TSAK++  I+E FL
Sbjct: 137 LE--KERHVSIQEAESYAESVG-AKHYHTSAKQNKGIEELFL 175

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  116 bits (290), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 101/165 (61%), Gaps = 7/165 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + KV+++G+SGVGKT+L++++  N+FS   + TIG +F T+ + +    V  QIWDTAG 
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL 84
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LV+D+   +T+  ++ W +E    A+         +L+GNK 
Sbjct: 85  ERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEA----TIVVMLVGNK- 139
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
            +D   +R VP ++A  +    G + + ETSA +  N++ AF  V
Sbjct: 140 -SDLSQAREVPTEEARMFAENNG-LLFLETSALDSTNVELAFETV 182

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 65/162 (40%), Positives = 101/162 (62%), Gaps = 7/162 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            KV++LG+  VGKTSL+ +Y  NKF+ ++  T+ A F+TK+L +  K V L IWDTAGQE
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF +LG  +YR ++  +LVYD+  + +F+ ++NW +E  K      +E C   ++GNKID
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG---NEIC-LCIVGNKID 122
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
            +    R V  ++A  +    G   ++ TSAK++  I+E FL
Sbjct: 123 LE--KERHVSIQEAESYAESVG-AKHYHTSAKQNKGIEELFL 161

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  115 bits (289), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 59/162 (36%), Positives = 101/162 (62%), Gaps = 7/162 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +   +K V LQIWDTAGQ
Sbjct: 23  MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQ 82
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W      Q      +    +L+GNK 
Sbjct: 83  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDW----ATQIKTYSWDNAQVILVGNKC 138
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    RVVP +K  +  A +    +FE SAKE+ ++ +AF
Sbjct: 139 DME--EERVVPTEKG-QLLAEQLGFDFFEASAKENISVRQAF 177

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  115 bits (288), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 100/162 (61%), Gaps = 7/162 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +  +DK + LQIWDTAGQ
Sbjct: 5   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ 64
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W      Q      +    +L+GNK 
Sbjct: 65  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWS----TQIKTYSWDNAQVLLVGNKC 120
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    RVV  ++  +   + G   +FE SAK++ N+ + F
Sbjct: 121 DME--DERVVSSERGRQLADHLG-FEFFEASAKDNINVKQTF 159

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 67/170 (39%), Positives = 97/170 (57%), Gaps = 7/170 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G +G GK+ L++Q++ NKF Q    TIG +F ++ + +  K V LQIWDTAGQ
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ 84
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ SL  W  +    A P        +L GNK 
Sbjct: 85  ERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPN----IVVILCGNKK 140
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D D    R V   +A  + A    + + ETSA    N++EAFL  A   L
Sbjct: 141 DLD--PEREVTFLEASRF-AQENELMFLETSALTGENVEEAFLKCARTIL 187

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/166 (37%), Positives = 100/166 (60%), Gaps = 6/166 (3%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GD+ VGKT ++ ++    FS++  +TIG DF  K L++  K V LQIWDTAGQ
Sbjct: 29  LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQ 88
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YR A+  +L YD+  + +F S+ +W E+  K A     +    +L+GNK 
Sbjct: 89  ERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQ----LLIGNK- 143
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
            +D    R V   +A     +   +   ETSAK+  N++EAFL VA
Sbjct: 144 -SDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVA 188

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  114 bits (285), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 63/172 (36%), Positives = 101/172 (58%), Gaps = 17/172 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++ GD+ VGK+S + +   N+F +   AT+G DF  K L +D +   LQ+WDTAGQER
Sbjct: 30  KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQER 89
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F+S+  +++R AD  +L+YDV  +K+F +++ W    +   +   HE  P +L+GNK D 
Sbjct: 90  FRSIAKSYFRKADGVLLLYDVTCEKSFLNIREW----VDMIEDAAHETVPIMLVGNKADI 145
Query: 134 DGGSS----RVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
              ++    + VP    +K A+ + A      + ETSAK+  NI EA L +A
Sbjct: 146 RDTAATEGQKCVPGHFGEKLAMTYGAL-----FCETSAKDGSNIVEAVLHLA 192

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  114 bits (285), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 62/164 (37%), Positives = 96/164 (58%), Gaps = 7/164 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LGD G GK+SL+ ++V ++F +  ++TIGA F ++ L ++D  V  +IWDTAGQER
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + SL   +YRGA   ++V+DV  Q +FE  + W +E   Q +P         L GNK  +
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPN----MVMALAGNK--S 127
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D   +R V  + A  +    G + + ETSAK   N+ E F  +A
Sbjct: 128 DLLDARKVTAEDAQTYAQENG-LFFMETSAKTATNVKEIFYEIA 170

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  114 bits (284), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 68/181 (37%), Positives = 106/181 (58%), Gaps = 16/181 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LV 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  + +           V
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAGQERF+SL +AF+R A   +L++D+  Q++F +++NW  +    A     E 
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA---YCEN 141
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E     G IPYFETSA    N+++A   + ++ +
Sbjct: 142 PDIVLIGNKADLP--DQREVNERQARELADKYG-IPYFETSAATGQNVEKAVETLLDLIM 198
Query: 182 K 182
           K
Sbjct: 199 K 199

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  113 bits (282), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 59/162 (36%), Positives = 97/162 (59%), Gaps = 7/162 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +   DK + LQIWDTAGQ
Sbjct: 22  MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQ 81
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  Q++F ++Q+W      Q      +    +L+GNK 
Sbjct: 82  ERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDW----ATQIKTYSWDNAQVILVGNKC 137
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           D +    RVVP +         G   +FE SAKE+ N+ + F
Sbjct: 138 DLE--DERVVPAEDGRRLADDLG-FEFFEASAKENINVKQVF 176

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 68/185 (36%), Positives = 106/185 (57%), Gaps = 16/185 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LV 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  D +           V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L++D+  Q++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA---YCEN 127
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E     G IPYFETSA    N++++   + ++ +
Sbjct: 128 PDIVLIGNKADLP--DQREVNERQARELAEKYG-IPYFETSAATGQNVEKSVETLLDLIM 184
Query: 182 KNEHK 186
           K   K
Sbjct: 185 KRMEK 189

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 68/185 (36%), Positives = 106/185 (57%), Gaps = 16/185 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LV 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  D +           V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L++D+  Q++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA---YCEN 127
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E     G IPYFETSA    N++++   + ++ +
Sbjct: 128 PDIVLIGNKADLP--DQREVNERQARELAEKYG-IPYFETSAATGQNVEKSVETLLDLIM 184
Query: 182 KNEHK 186
           K   K
Sbjct: 185 KRMEK 189

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  112 bits (280), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 67/178 (37%), Positives = 103/178 (57%), Gaps = 8/178 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G++G GK+ L++Q++  KF      TIG +F +K + +  K V LQIWDTAGQ
Sbjct: 10  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 69
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ +L NW    L  A     +    +L GNK 
Sbjct: 70  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNW----LTDARMLASQNIVIILCGNKK 125
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKNEHKDI 188
           D D  + R V   +A  + A    + + ETSA    N++EAF+ C  +I  K E  ++
Sbjct: 126 DLD--ADREVTFLEASRF-AQENELMFLETSALTGENVEEAFVQCARKILNKIESGEL 180

>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 =  112 bits (280), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 98/165 (59%), Gaps = 7/165 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   + + G       +L+GNK  
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDV--RTERGSD--VIIMLVGNK-- 115
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA
Sbjct: 116 TDLADKRQVSIEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVA 159

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  112 bits (280), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 62/165 (37%), Positives = 97/165 (58%), Gaps = 7/165 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F     W ++   + + G       +L+GNK  
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDV--RTERGSD--VIIMLVGNK-- 128
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA
Sbjct: 129 TDLSDKRQVSTEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVA 172

>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 =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 68/185 (36%), Positives = 104/185 (56%), Gaps = 16/185 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LV 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  D +           V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L +D+  Q++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANA---YCEN 127
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E     G IPYFETSA    N++++   + ++  
Sbjct: 128 PDIVLIGNKADLP--DQREVNERQARELAEKYG-IPYFETSAATGQNVEKSVETLLDLIX 184
Query: 182 KNEHK 186
           K   K
Sbjct: 185 KRXEK 189

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 68/185 (36%), Positives = 104/185 (56%), Gaps = 16/185 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LV 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  D +           V
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L +D+  Q++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANA---YCEN 127
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E     G IPYFETSA    N++++   + ++  
Sbjct: 128 PDIVLIGNKADLP--DQREVNERQARELAEKYG-IPYFETSAATGQNVEKSVETLLDLIX 184
Query: 182 KNEHK 186
           K   K
Sbjct: 185 KRXEK 189

>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 =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/167 (32%), Positives = 100/167 (59%), Gaps = 7/167 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +  +DK + LQIWDTAG E
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R++++ +A+YRGA   +L YD+  +++F ++Q+W      Q      +    +L+GNK D
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESFNAVQDWS----TQIKTYSWDNAQVLLVGNKCD 124
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            +    RVV  ++  +   + G   +FE SAK++ N+ + F  + ++
Sbjct: 125 XE--DERVVSSERGRQLADHLG-FEFFEASAKDNINVKQTFERLVDV 168

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 67/187 (35%), Positives = 104/187 (55%), Gaps = 16/187 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------DKLV 61
           L+K + LGDSGVGKTS++ QY   KF+ ++  T+G DF  K +              + +
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70
Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L++D+  +++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHA---YSEN 127
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL GNK D +    R V +++A E  A +  IPYFETSA    NI  A   + ++ +
Sbjct: 128 PDIVLCGNKSDLE--DQRAVKEEEARE-LAEKYGIPYFETSAANGTNISHAIEMLLDLIM 184
Query: 182 KNEHKDI 188
           K   + +
Sbjct: 185 KRMERSV 191

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 98/165 (59%), Gaps = 7/165 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ + LQ+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   + + G       +L+GNK  
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDV--RTERGSD--VIIMLVGNK-- 120
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA
Sbjct: 121 TDLADKRQVSIEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVA 164

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  110 bits (276), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 61/170 (35%), Positives = 100/170 (58%), Gaps = 7/170 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   + + G       +L+GNK  
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDV--RTERGSD--VIIMLVGNK-- 116
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           TD    R +  ++  E  A   ++ + ETSAK   N+ + F  VA   L+
Sbjct: 117 TDLADKRQITIEEG-EQRAKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  110 bits (274), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 59/172 (34%), Positives = 101/172 (58%), Gaps = 7/172 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K I++GD GVGK+ L++Q+   KF      TIG +F T+ +++  + + LQIWDTAGQ
Sbjct: 15  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 74
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YRGA   ++VYD+  + T+  L +W  +     +P        +L+GNK 
Sbjct: 75  ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN----TVIILIGNKA 130
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  + R V  ++A ++    G + + E SAK   N+++AFL  A+   +N
Sbjct: 131 DLE--AQRDVTYEEAKQFAEENG-LLFLEASAKTGENVEDAFLEAAKKIYQN 179

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 97/165 (58%), Gaps = 7/165 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   + + G       +L+GNK  
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDV--RTERGSD--VIIMLVGNK-- 120
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA
Sbjct: 121 TDLADKRQVSIEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVA 164

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 64/169 (37%), Positives = 99/169 (58%), Gaps = 8/169 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G++G GK+ L++Q++  KF      TIG +F +K + +  K V LQIWDTAGQ
Sbjct: 11  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 70
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ +L NW    L  A     +    +L GNK 
Sbjct: 71  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNW----LTDARMLASQNIVIILCGNKK 126
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEI 179
           D D  + R V   +A  + A    + + ETSA    +++EAF+ C  +I
Sbjct: 127 DLD--ADREVTFLEASRF-AQENELMFLETSALTGEDVEEAFVQCARKI 172

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 96/164 (58%), Gaps = 7/164 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++ LG+  VGKTS++ ++ Y+ F   Y++TIG DF++K L +D+  V LQ+WDTAGQER
Sbjct: 3   KLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQER 62
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F+SL  ++ R +   ++VYD+  +++FE+   W ++ L +      +     L+GNK  T
Sbjct: 63  FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE----RGKDVIIALVGNK--T 116
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           D G  R V  ++  +  A   N  + ETSAK   NI   F   A
Sbjct: 117 DLGDLRKVTYEEGXQ-KAQEYNTXFHETSAKAGHNIKVLFKKTA 159

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 71/208 (34%), Positives = 113/208 (54%), Gaps = 23/208 (11%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ + LQ+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   + + G       +L+GNK  
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDV--RTERGSD--VIIMLVGNK-- 127
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA------EIALKNEHK 186
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA      E       +
Sbjct: 128 TDLADKRQVSIEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSRE 186
Query: 187 DI----YYQPQGISETVSEVEQRGGCAC 210
           D+      +PQ   + VSE    GGC+C
Sbjct: 187 DMIDIKLEKPQ--EQPVSE----GGCSC 208

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  107 bits (268), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 95/165 (57%), Gaps = 7/165 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+SL  ++ R +   V+VYD+    +F+    W ++   +           +L+GNK  
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTE----RGSDVIIMLVGNK-- 130
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           TD    R V  ++  E  A   N+ + ETSAK   N+ + F  VA
Sbjct: 131 TDLADKRQVSIEEG-ERKAKELNVMFIETSAKAGYNVKQLFRRVA 174

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  107 bits (268), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 100/172 (58%), Gaps = 7/172 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K I++GD GVGK+ L++Q+   KF      TIG +F T+ +++  + + LQIWDTAGQ
Sbjct: 30  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 89
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
            RF+++  ++YRGA   ++VYD+  + T+  L +W  +     +P        +L+GNK 
Sbjct: 90  GRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN----TVIILIGNKA 145
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  + R V  ++A ++    G + + E SAK   N+++AFL  A+   +N
Sbjct: 146 DLE--AQRDVTYEEAKQFAEENG-LLFLEASAKTGENVEDAFLEAAKKIYQN 194

>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 =  106 bits (265), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 63/169 (37%), Positives = 98/169 (57%), Gaps = 8/169 (4%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G++G GK+ L++Q++  KF      TIG +F +K + +  K V LQIWDTAG 
Sbjct: 8   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGL 67
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ +L NW    L  A     +    +L GNK 
Sbjct: 68  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNW----LTDARMLASQNIVIILCGNKK 123
Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEI 179
           D D  + R V   +A  + A    + + ETSA    +++EAF+ C  +I
Sbjct: 124 DLD--ADREVTFLEASRF-AQENELMFLETSALTGEDVEEAFVQCARKI 169

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 60/152 (39%), Positives = 90/152 (59%), Gaps = 7/152 (4%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK++++G+SGVGK+SL+ ++  + F  +  ATIG DF  K + +D     L IWDTAGQE
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L  ++YRGA   +LVYDV  + TF  L NW  E        +       L+GNKID
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRND---IVNXLVGNKID 132
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAK 164
            +   +R V + + L++ A + +  + E SAK
Sbjct: 133 KE---NREVDRNEGLKF-ARKHSXLFIEASAK 160

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 48/118 (40%), Positives = 82/118 (69%), Gaps = 4/118 (3%)
Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           ++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 75  QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +++ S++YRGA   ++VYDV  Q++F +++ W    L++ D    E    +L+GNK D
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQW----LQEIDRYASENVNKLLVGNKCD 114

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 99/174 (56%), Gaps = 10/174 (5%)
Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           R  + K+IV+GDS VGKT L  ++   +F  + +ATIG DF  + + +D + + +Q+WDT
Sbjct: 17  RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDT 76
Query: 69  AGQERFQ-SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           AGQERF+ S+   +YR     V VYD+    +F SL  W EE  +     +    P +L+
Sbjct: 77  AGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLAND---IPRILV 133
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK---EDCNIDEAFLCVAE 178
           GNK D    S+  VP   A ++ A   ++P FETSAK   ++ +++  F+ +A 
Sbjct: 134 GNKCDLR--SAIQVPTDLAQKF-ADTHSMPLFETSAKNPNDNDHVEAIFMTLAH 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 =  102 bits (254), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 61/157 (38%), Positives = 88/157 (56%), Gaps = 7/157 (4%)
Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           R  + K+IV+GDS VGKT L  ++   +F  + +ATIG DF  + + +D + + +Q+WDT
Sbjct: 26  RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDT 85
Query: 69  AGQERFQ-SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           AGQERF+ S+   +YR     V VYD     +F SL  W EE  +     +    P +L+
Sbjct: 86  AGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLAND---IPRILV 142
Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK 164
           GNK D    S+  VP   A ++ A   + P FETSAK
Sbjct: 143 GNKCDLR--SAIQVPTDLAQKF-ADTHSXPLFETSAK 176

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 65/170 (38%), Positives = 91/170 (53%), Gaps = 10/170 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL-VTLQIWDTAGQ 71
           LK++VLGD   GKTSL   +    F +QYK TIG DF  + + +   L VTLQIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV-LLGNK 130
                +   +  GA   +LVYD+   ++FE+L++W     K ++  E E  P V L+GNK
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSE--ESETQPLVALVGNK 124
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA 180
           ID +    R +  +K L +C   G   +F  SAK     D  FLC  ++A
Sbjct: 125 IDLE--HMRTIKPEKHLRFCQENGFSSHF-VSAKTG---DSVFLCFQKVA 168

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 90/166 (54%), Gaps = 10/166 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A 
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 90/165 (54%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 130
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 131 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 170

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 90/166 (54%), Gaps = 10/166 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 118
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A 
Sbjct: 119 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 159

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 90/165 (54%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 90/165 (54%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>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 = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 50/180 (27%), Positives = 95/180 (52%), Gaps = 10/180 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP 192
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A   + + + +    P
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMP 180

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 60/173 (34%), Positives = 94/173 (54%), Gaps = 8/173 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 64
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D 
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKSDL 121
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
               SR V  K+A +     G IP+ ETSAK    +D+AF  +     K++ K
Sbjct: 122 ---PSRTVDTKQAQDLARSYG-IPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>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 = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 90/164 (54%), Gaps = 14/164 (8%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F ++Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTI-EDSYRKQVEVDCQQCMLEILDTAGTEQ 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D    E  P +L+GNK D 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDL 120
Query: 134 DGGSSRVV----PQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV     Q  A +WC    N  + E+SAK   N++E F
Sbjct: 121 E--DERVVGKEQGQNLARQWC----NCAFLESSAKSKINVNEIF 158

>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 = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 89/164 (54%), Gaps = 14/164 (8%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F  +Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVDEYDPTI-EDSYRKQVEVDCQQCMLEILDTAGTEQ 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D    E  P +L+GNK D 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDL 120
Query: 134 DGGSSRVV----PQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV     Q  A +WC    N  + E+SAK   N++E F
Sbjct: 121 E--DERVVGKEQGQNLARQWC----NCAFLESSAKSKINVNEIF 158

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 89/165 (53%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++ +DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 48/166 (28%), Positives = 89/166 (53%), Gaps = 10/166 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y  T+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A 
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 95.9 bits (237), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 90/165 (54%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           ++  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 89/165 (53%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y  T+G +        +   +   +WDTAGQE
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>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 = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 58/160 (36%), Positives = 89/160 (55%), Gaps = 8/160 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 64
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D 
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKCDL 121
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
               SR V  K+A +     G IP+ ETSAK    +D+AF
Sbjct: 122 ---PSRTVDTKQAQDLARSYG-IPFIETSAKTRQGVDDAF 157

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 56/165 (33%), Positives = 95/165 (57%), Gaps = 11/165 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGQ 72
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+     E E  PF+L+GNK 
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR---VKEDENVPFLLVGNKS 129
Query: 132 DTDGGSSRVVPQKK--ALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +      V + K  A +W     N+ Y ETSAK   N+D+ F 
Sbjct: 130 DLEDKRQVSVEEAKNRAEQW-----NVNYVETSAKTRANVDKVFF 169

>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 = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 56/165 (33%), Positives = 95/165 (57%), Gaps = 11/165 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGQ 76
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+     E E  PF+L+GNK 
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR---VKEDENVPFLLVGNKS 133
Query: 132 DTDGGSSRVVPQKK--ALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +      V + K  A +W     N+ Y ETSAK   N+D+ F 
Sbjct: 134 DLEDKRQVSVEEAKNRAEQW-----NVNYVETSAKTRANVDKVFF 173

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 56/165 (33%), Positives = 95/165 (57%), Gaps = 11/165 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAGQ
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGQ 64
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+     E E  PF+L+GNK 
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR---VKEDENVPFLLVGNKS 121
Query: 132 DTDGGSSRVVPQKK--ALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +      V + K  A +W     N+ Y ETSAK   N+D+ F 
Sbjct: 122 DLEDKRQVSVEEAKNRAEQW-----NVNYVETSAKTRANVDKVFF 161

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 95.1 bits (235), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 88/160 (55%), Gaps = 6/160 (3%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F ++Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTI-EDSYRKQVEVDAQQCMLEILDTAGTEQ 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D  +    P +L+GNK D 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDD---VPMILVGNKCDL 120
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV +++         N  + E+SAK   N++E F
Sbjct: 121 E--DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIF 158

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 95.1 bits (235), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 94/180 (52%), Gaps = 10/180 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 73  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 127
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP 192
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A   + + + +    P
Sbjct: 128 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMP 182

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 94/180 (52%), Gaps = 10/180 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAG E
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 67  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 121
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP 192
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A   + + + +    P
Sbjct: 122 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMP 176

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 88/160 (55%), Gaps = 6/160 (3%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F ++Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 7   KLVVLGSVGVGKSALTVQFVQGIFVEKYDPTI-EDSYRKQVEVDAQQCMLEILDTAGTEQ 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D  +    P +L+GNK D 
Sbjct: 66  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDD---VPMILVGNKCDL 122
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +    RVV +++         N  + E+SAK   N++E F
Sbjct: 123 E--DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIF 160

>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 = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 56/165 (33%), Positives = 95/165 (57%), Gaps = 11/165 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGQ 62
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+     E E  PF+L+GNK 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR---VKEDENVPFLLVGNKS 119
Query: 132 DTDGGSSRVVPQKK--ALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +      V + K  A +W     N+ Y ETSAK   N+D+ F 
Sbjct: 120 DLEDKRQVSVEEAKNRADQW-----NVNYVETSAKTRANVDKVFF 159

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 89/165 (53%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAG E
Sbjct: 11  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLE 70
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 71  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 125
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 126 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 165

>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 = 94.0 bits (232), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/192 (28%), Positives = 94/192 (48%), Gaps = 10/192 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y ATIG +        +   +   +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 127
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQP 192
                 R V  K        + N+ Y++ SAK + N ++ FL +A     N   +    P
Sbjct: 128 V---KERKVKAKTIT--FHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQLEFVASP 182
Query: 193 QGISETVSEVEQ 204
                 V   EQ
Sbjct: 183 ALAPPEVQVDEQ 194

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 94.0 bits (232), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 88/166 (53%), Gaps = 10/166 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y ATIG +        +   +   +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 120
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V  K        + N+ Y++ SAK + N ++ FL +A 
Sbjct: 121 V---KERKVKAKTIT--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 161

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 94.0 bits (232), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 89/165 (53%), Gaps = 10/165 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +  ++Y AT+G +        +   +   +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 130
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
                 R V  K  +     + N+ Y++ SAK + N ++ FL +A
Sbjct: 131 I---KDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLA 170

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 93.6 bits (231), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 88/166 (53%), Gaps = 10/166 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD G GKT+ + +++  +F ++Y ATIG +        +   +   +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           +F  L   +Y  A C ++++DV  + T++++ NW  + ++       E  P VL GNK+D
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVC-----ENIPIVLCGNKVD 119
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V  K        + N+ Y++ SAK + N ++ FL +A 
Sbjct: 120 V---KERKVKAKTIT--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 160

>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 = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 63/176 (35%), Positives = 91/176 (51%), Gaps = 9/176 (5%)
Query: 6   NMKRRNL-LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGA-DFVTKELQMDDKLVTL 63
           +M+RR L  K+ ++GD GVGKT+ +N+ +  +F + Y AT+GA +     L     ++  
Sbjct: 4   SMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKF 63
Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP 123
            +WDTAGQE+   L   +Y GA   +L +DV  + T ++L  W +EF  QA  G     P
Sbjct: 64  NVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEF--QAVVGNE--AP 119
Query: 124 FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
            V+  NKID     +R    KK +       N  YFE SAK   N    FL +A I
Sbjct: 120 IVVCANKIDI---KNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARI 172

>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 = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 56/160 (35%), Positives = 88/160 (55%), Gaps = 8/160 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL 120
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            G   R V  ++A +     G IPY ETSAK    +++AF
Sbjct: 121 AG---RTVESRQAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 92.4 bits (228), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/167 (32%), Positives = 94/167 (56%), Gaps = 14/167 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGL 65
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  +LV+ +   ++F +   +RE+ L+     E +  P +++GNK 
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRV--KAEEDKIPLLVVGNKS 123
Query: 132 DTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +    R VP    + KA EW      + Y ETSAK   N+D+ F 
Sbjct: 124 DLE--ERRQVPVEEARSKAEEW-----GVQYVETSAKTRANVDKVFF 163

>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 = 92.4 bits (228), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/167 (32%), Positives = 94/167 (56%), Gaps = 14/167 (8%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGL 61
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  +LV+ +   ++F +   +RE+ L+     E +  P +++GNK 
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRV--KAEEDKIPLLVVGNKS 119
Query: 132 DTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +    R VP    + KA EW      + Y ETSAK   N+D+ F 
Sbjct: 120 DLE--ERRQVPVEEARSKAEEW-----GVQYVETSAKTRANVDKVFF 159

>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 = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/165 (33%), Positives = 94/165 (56%), Gaps = 11/165 (6%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T  AD   K++ +D + V + I DTAG 
Sbjct: 6   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPT-KADSYRKKVVLDGEEVQIDILDTAGL 64
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+     E E  PF+L+GNK 
Sbjct: 65  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR---VKEDENVPFLLVGNKS 121
Query: 132 DTDGGSSRVVPQKK--ALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           D +      V + K  A +W     N+ Y ETSAK   N+D+ F 
Sbjct: 122 DLEDKRQVSVEEAKNRAEQW-----NVNYVETSAKTRANVDKVFF 161

>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 = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 89/160 (55%), Gaps = 8/160 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL 120
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
              ++R V  ++A +     G IPY ETSAK    +++AF
Sbjct: 121 ---AARTVESRQAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 89/160 (55%), Gaps = 8/160 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGARGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL 120
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
              ++R V  ++A +     G IPY ETSAK    +++AF
Sbjct: 121 ---AARTVESRQAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 89/160 (55%), Gaps = 8/160 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEE 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL 120
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
              ++R V  ++A +     G IPY ETSAK    +++AF
Sbjct: 121 ---AARTVESRQAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 84.3 bits (207), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 57/188 (30%), Positives = 92/188 (48%), Gaps = 13/188 (6%)
Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M     +K + +GD  VGKT ++  Y  NKF   Y  T+  +F +  + +D ++V L +
Sbjct: 3   HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGL 61
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPF 124
           WDTAGQE +  L    YRGAD  VL + +  + ++E+ L+ W  E L++  P      P 
Sbjct: 62  WDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPE-LRRFAPN----VPI 116
Query: 125 VLLGNKIDT--DGG----SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           VL+G K+D   D G     + V+   +  E     G   Y E S+K   N+   F    +
Sbjct: 117 VLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIK 176
Query: 179 IALKNEHK 186
           + L+   +
Sbjct: 177 VVLQPPRR 184

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 54/162 (33%), Positives = 85/162 (52%), Gaps = 8/162 (4%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D     SR V  K
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKSDL---PSRTVDTK 129
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           +A +     G IP+ ETSAK    +D+AF  +     K++ K
Sbjct: 130 QAQDLARSYG-IPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 83.2 bits (204), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 54/162 (33%), Positives = 85/162 (52%), Gaps = 8/162 (4%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D     SR V  K
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKSDL---PSRTVDTK 129
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           +A +     G IP+ ETSAK    +D+AF  +     K++ K
Sbjct: 130 QAQDLARSYG-IPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 55/185 (29%), Positives = 86/185 (46%), Gaps = 15/185 (8%)
Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M     +K + +GD  VGKT ++  Y  N F   Y  T+  +F +  + +D   V L +W
Sbjct: 1   MSTARFIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNF-SANVVVDGSTVNLGLW 59
Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFV 125
           DTAGQE +  L    YRGAD  +L + +  + ++E++ + W  E LK   PG     P V
Sbjct: 60  DTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPE-LKHYAPG----IPIV 114
Query: 126 LLGNKIDT--------DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           L+G K+D         D   +  +   +  E     G + Y E S+K   N+   F    
Sbjct: 115 LVGTKLDLRDDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVFDTAI 174
Query: 178 EIALK 182
            +AL+
Sbjct: 175 RVALR 179

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/162 (32%), Positives = 84/162 (51%), Gaps = 8/162 (4%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D     SR V  K
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKCDL---PSRTVDTK 146
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           +A +     G IP+ ETSAK    +D+AF  +     K++ K
Sbjct: 147 QAQDLARSYG-IPFIETSAKTRQGVDDAFYTLVREIRKHKEK 187

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 58/189 (30%), Positives = 90/189 (47%), Gaps = 23/189 (12%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +KV+++GD G GKTSL+  +    F + Y  T+   ++   LQ+  K V L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQD 93
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREE---FLKQADPGEHEACPFVLLG 128
            +  L   FY  A   +L +DV    +F+++ N W  E   F K+         P +++G
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKV--------PIIVVG 145
Query: 129 NKIDTDGGSSRVVP-QKKALEWCAYR---------GNIPYFETSAKEDCNIDEAFLCVAE 178
            K D     S V   ++  LE   Y          G + Y E SA+   N+   F   AE
Sbjct: 146 CKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAE 205
Query: 179 IALKNEHKD 187
           +AL +  ++
Sbjct: 206 VALSSRGRN 214

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 80.1 bits (196), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 81/151 (53%), Gaps = 11/151 (7%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q+V   F ++Y  TI  DF  KE+++D     L+I DTAG E+F S+   + + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
               +LVY +  Q++F+ ++  R++ ++      +E  P +L+GNK+D +        + 
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVK---RYEKVPVILVGNKVDLESEREVSSSEG 131
Query: 145 KAL--EWCAYRGNIPYFETSAKEDCNIDEAF 173
           +AL  EW       P+ ETSAK    +DE F
Sbjct: 132 RALAEEWGC-----PFMETSAKSKTMVDELF 157

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 55/214 (25%), Positives = 96/214 (44%), Gaps = 47/214 (21%)
Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---------- 56
           M++++  K ++LG+S VGK+S++ +   + F +    TIGA F T  + +          
Sbjct: 2   MEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSN 61
Query: 57  -------------------------DDKL--VTLQIWDTAGQERFQSLGSAFYRGADCCV 89
                                    ++ L  +   IWDTAGQER+ S+   +YRGA C +
Sbjct: 62  NEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAI 121
Query: 90  LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEW 149
           +V+D++   T +  + W  +    ++         +L+ NKID +     ++  +K    
Sbjct: 122 VVFDISNSNTLDRAKTWVNQLKISSNY------IIILVANKIDKNKFQVDILEVQKY--- 172
Query: 150 CAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            A   N+ + +TSAK   NI   F  +AE   KN
Sbjct: 173 -AQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN 205

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 81/149 (54%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D ++  L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGEICLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/185 (28%), Positives = 86/185 (46%), Gaps = 15/185 (8%)
Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M     +K + +GD  VGKT ++  Y  N F   Y  T+  +F +  + +D   V L +W
Sbjct: 1   MSASRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLW 59
Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFV 125
           DTAGQE +  L    YRGAD  +L + +  + ++E++ + W  E L+   PG     P +
Sbjct: 60  DTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPE-LRHYAPG----VPII 114
Query: 126 LLGNKID--------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           L+G K+D         D   +  +   +  E     G+  Y E S+K   N+   F    
Sbjct: 115 LVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDAAI 174
Query: 178 EIALK 182
           ++ L+
Sbjct: 175 KVVLQ 179

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 81/152 (53%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 135
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 136 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 166

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 81/149 (54%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F ++Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 133
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 134 QAQDLARSYG-IPYIETSAKTRQGVEDAF 161

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 133
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 134 QAQDLARSYG-IPYIETSAKTRQGVEDAF 161

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/186 (28%), Positives = 84/186 (45%), Gaps = 15/186 (8%)
Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M     +K + +GD  VGKT L+  Y  N F   Y  T+  +F +  + ++   V L +
Sbjct: 2   SMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGL 60
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPF 124
           WDTAGQE +  L    YRGAD  +L + +  + ++E++ + W  E LK   PG     P 
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPE-LKHYAPG----VPI 115
Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGN--------IPYFETSAKEDCNIDEAFLCV 176
           VL+G K+D        +    A+     +G           Y E S+K   N+   F   
Sbjct: 116 VLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAA 175
Query: 177 AEIALK 182
             + L+
Sbjct: 176 IRVVLQ 181

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 81/152 (53%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 159

>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 = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDKYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI   +  K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K +L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 51/158 (32%), Positives = 83/158 (52%), Gaps = 7/158 (4%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q++ + F   Y  TI  D  TK+  +DD+   L I DTAGQE F ++   + R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTI-EDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  +LV+ V  + +FE +  ++ + L+  D  E    P +L+GNK D D    R V Q+
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDE---FPMILIGNKADLD--HQRQVTQE 131
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           +  +  A +  + Y E SAK   N+D+AF  +  +  K
Sbjct: 132 EG-QQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRK 168

>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 = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GN+ D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNRCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 81/152 (53%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  +I  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 134
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 135 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 165

>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 = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  +I  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 80/153 (52%), Gaps = 8/153 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DT GQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           +A +     G IPY ETSAK    +++AF  + 
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTLV 160

>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 = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG+E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTA QE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKXDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 159

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTA QE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKXDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 159

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 80/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  ++  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEFDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>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 = 76.6 bits (187), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 80/153 (52%), Gaps = 8/153 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DT GQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           +A +     G IPY ETSAK    +++AF  + 
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTLV 160

>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 = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE   ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEASAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 8/152 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETXLLDILDTAGGEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           +A +     G IPY ETSAK    +++AF  +
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAFYTL 159

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 133
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 134 QAQDLARSYG-IPYIETSAKTRQGVEDAF 161

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 80/150 (53%), Gaps = 8/150 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q+    F  +Y  TI   ++ K  ++D++   L + DTAGQE F ++   + R 
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+D      R V + 
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKD---RESFPMILVANKVDL--MHLRKVTRD 144
Query: 145 KALEWCAYRGNIPYFETSAKE-DCNIDEAF 173
           +  E  A + NIPY ETSAK+   N+D+ F
Sbjct: 145 QGKE-MATKYNIPYIETSAKDPPLNVDKTF 173

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 79/150 (52%), Gaps = 8/150 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q+    F  +Y  TI  D   K  ++D++   L + DTAGQE F ++   + R 
Sbjct: 31  KSALTIQFFQKIFVDEYDPTI-EDSYRKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+D      R V + 
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKD---RESFPMILVANKVDL--MHLRKVTRD 144
Query: 145 KALEWCAYRGNIPYFETSAKE-DCNIDEAF 173
           +  E  A + NIPY ETSAK+   N+D+ F
Sbjct: 145 QGKE-MATKYNIPYIETSAKDPPLNVDKTF 173

>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 = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAG E + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKCDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 79/150 (52%), Gaps = 8/150 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q+    F   Y  TI   ++ K  ++D++   L + DTAGQE F ++   + R 
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+D      R V + 
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKD---RESFPMILVANKVDL--MHLRKVTRD 144
Query: 145 KALEWCAYRGNIPYFETSAKE-DCNIDEAF 173
           +  E  A + NIPY ETSAK+   N+D+ F
Sbjct: 145 QGKE-MATKYNIPYIETSAKDPPLNVDKTF 173

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 79/150 (52%), Gaps = 8/150 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q+    F   Y  TI   ++ K  ++D++   L + DTAGQE F ++   + R 
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 84
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+D      R V + 
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKD---RESFPMILVANKVDL--MHLRKVTRD 139
Query: 145 KALEWCAYRGNIPYFETSAKE-DCNIDEAF 173
           +  E  A + NIPY ETSAK+   N+D+ F
Sbjct: 140 QGKE-MATKYNIPYIETSAKDPPLNVDKTF 168

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 49/153 (32%), Positives = 79/153 (51%), Gaps = 8/153 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+F  +  +RE+  +  D  +    P VL+GNK D     +R V  K
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDD---VPMVLVGNKCDL---PTRTVDTK 146
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA 177
           +A E     G IP+ ETSAK    +++AF  + 
Sbjct: 147 QAHELAKSYG-IPFIETSAKTRQGVEDAFYTLV 178

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 51/149 (34%), Positives = 78/149 (52%), Gaps = 7/149 (4%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q++ + F   Y  TI  D  TK   +D     L I DTAGQE F ++   + R 
Sbjct: 22  KSALTIQFIQSYFVSDYDPTI-EDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
               +LV+ +N +++F  +     + L+  D    +  P VL+GNK D +  S R VP+ 
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKD---RDDFPVVLVGNKADLE--SQRQVPRS 135
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A  + A   ++ YFE SAK   N+DEAF
Sbjct: 136 EASAFGASH-HVAYFEASAKLRLNVDEAF 163

>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 = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 79/149 (53%), Gaps = 8/149 (5%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K++L  Q + N F  +   TI  D   K++ +D +   L I DTAGQE + ++   + R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK 144
            +  + V+ +N  K+FE +  +RE+  +  D  +    P VL+GNK D    ++R V  +
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD---VPMVLVGNKSDL---AARTVESR 128
Query: 145 KALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +A +     G IPY ETSAK    +++AF
Sbjct: 129 QAQDLARSYG-IPYIETSAKTRQGVEDAF 156

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 55/194 (28%), Positives = 98/194 (50%), Gaps = 24/194 (12%)
Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVY--NKFSQQYKATIGADFVTKELQMDD 58
           +DI+  ++     KV V+G++ VGK++L++ +    +KF + Y  T G + V   + + D
Sbjct: 13  IDITATLR----CKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPD 68
Query: 59  KLVTLQIW--DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADP 116
             V+++++  DTAG + ++   S ++ G    +LV+DV+  ++FES + W  E LK A P
Sbjct: 69  TTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWF-ELLKSARP 127
Query: 117 GEHEACPFVLLGNKIDTDGGSSRVVPQKK------ALEWCAYRGNIPYFETSAKEDC-NI 169
                   VL+ NK D       + PQ+       A +W A    + +F+ SA     + 
Sbjct: 128 DRERPLRAVLVANKTD-------LPPQRHQVRLDMAQDW-ATTNTLDFFDVSANPPGKDA 179
Query: 170 DEAFLCVAEIALKN 183
           D  FL +A    +N
Sbjct: 180 DAPFLSIATTFYRN 193

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/163 (31%), Positives = 81/163 (49%), Gaps = 6/163 (3%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           N  +V V G  GVGK+SL+ ++V   F + Y  T+  D   + +  D  + TLQI DT G
Sbjct: 2   NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTV-EDTYRQVISCDKSICTLQITDTTG 60
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
             +F ++           +LVY +  +++ E L+   E+  +    G+ E+ P +L+GNK
Sbjct: 61  SHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIK--GDVESIPIMLVGNK 118
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            D     SR V   +A E  A      + ETSAK + N+ E F
Sbjct: 119 CDE--SPSREVQSSEA-EALARTWKCAFMETSAKLNHNVKELF 158

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 45/165 (27%), Positives = 80/165 (48%), Gaps = 7/165 (4%)
Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           +  LK++V+GD  VGKT L+  +   +    Y  T+  +F +  ++  ++   L +WDTA
Sbjct: 21  KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTA 79
Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLG 128
           GQE +  L    Y  +D  +L + VN + +F+++   W  E     D  +      VL+G
Sbjct: 80  GQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKT-----VLVG 134
Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            K+D     S  V +++  + C   G + Y E S+     ++E F
Sbjct: 135 LKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 45/165 (27%), Positives = 80/165 (48%), Gaps = 7/165 (4%)
Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           +  LK++V+GD  VGKT L+  +   +    Y  T+  +F +  ++  ++   L +WDTA
Sbjct: 20  KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTA 78
Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLG 128
           GQE +  L    Y  +D  +L + VN + +F+++   W  E     D  +      VL+G
Sbjct: 79  GQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKT-----VLVG 133
Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            K+D     S  V +++  + C   G + Y E S+     ++E F
Sbjct: 134 LKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 64
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 119
Query: 132 D 132
           D
Sbjct: 120 D 120

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 65/121 (53%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N FS +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 73  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPN----TPIILVGTKL 127
Query: 132 D 132
           D
Sbjct: 128 D 128

>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 = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 67
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 122
Query: 133 --TDGGSSRVVPQKK--------ALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R + + K          +     G   Y E SAK    + E F      AL+
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 182

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 121
Query: 132 D 132
           D
Sbjct: 122 D 122

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 66
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 121
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 122 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 181

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 67
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 122
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 182

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 68
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 123
Query: 133 --TDGGSSRVVPQKK--------ALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R + + K          +     G   Y E SAK    + E F      AL+
Sbjct: 124 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 183

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120
Query: 133 --TDGGSSRVVPQKK--------ALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R + + K          +     G   Y E SAK    + E F      AL+
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 67
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 122
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 182

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 69
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 124
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 125 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 184

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 66
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 121
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 122 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 181

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 66/120 (55%), Gaps = 7/120 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  +++  ++++D K V L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDTAGQED 85
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFXPN----VPIILVGNKKD 140

>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 = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    ++E+++  W  E           + P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHC-----PSTPIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 89
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 144
Query: 132 D 132
           D
Sbjct: 145 D 145

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PHTPILLVGTKL 118
Query: 132 D 132
           D
Sbjct: 119 D 119

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 64/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 81
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 82  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 136
Query: 132 D 132
           D
Sbjct: 137 D 137

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PHTPILLVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQE 68
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    ++E+++  W  E           + P +L+G K+
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHC-----PSTPIILVGTKL 123
Query: 132 D 132
           D
Sbjct: 124 D 124

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PHTPILLVGTKL 118
Query: 132 D 132
           D
Sbjct: 119 D 119

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/155 (31%), Positives = 78/155 (50%), Gaps = 11/155 (7%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV++LG   VGKTSL +Q+V  +FS+ Y  T+   + +K + +      L + DTAGQ+ 
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDE 84
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID- 132
           +  L  +F  G    VLVY V    +F+ +++    + K  +       P VL+GNK D 
Sbjct: 85  YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESL---YQKLHEGHGKTRVPVVLVGNKADL 141
Query: 133 -TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED 166
             +     V  +K A  W A      + E+SA+E+
Sbjct: 142 SPEREVQAVEGKKLAESWGA-----TFMESSAREN 171

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 62/121 (51%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQE 69
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    ++E+++  W  E           + P +L+G K+
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHC-----PSTPIILVGTKL 124
Query: 132 D 132
           D
Sbjct: 125 D 125

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 118
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 119 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 178

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 66/120 (55%), Gaps = 7/120 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F + Y  T+  +++  ++++D K V L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDTAGQED 85
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 140

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120
Query: 133 --TDGGSSRVVPQKK--------ALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R + + K          +     G   Y E SAK    + E F      AL+
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 49/179 (27%), Positives = 83/179 (46%), Gaps = 17/179 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 63
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 118
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              D  + R         V  ++  +     G   Y E SAK    + E F      AL
Sbjct: 119 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL 177

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 64
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 119
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 120 DLRDDPSTI 128

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>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 = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 63
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 64  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 118
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 119 DLRDDPSTI 127

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 120
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 121 DLRDDPSTI 129

>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 = 63.9 bits (154), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 120
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 121 DLRDDPSTI 129

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VXIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 69
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 124
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 125 DLRDDPSTI 133

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 73  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 127
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 128 DLRDDPSTI 136

>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 = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 50/180 (27%), Positives = 85/180 (47%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+  +  ++F   Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +       Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120
Query: 133 --TDGGSSRVV------PQKKA--LEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  ++R +      P K A   +     G   Y E SAK    + E F      AL+
Sbjct: 121 LRNDEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 180

>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 = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 121
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 122 DLRDDPSTI 130

>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 = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 63/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 64
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 119
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 120 DLRDDPSTI 128

>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 = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGK  L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 69
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 124
Query: 132 D 132
           D
Sbjct: 125 D 125

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 76/145 (52%), Gaps = 17/145 (11%)
Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MD + N+K     K++V+GDS  GKT+L++ +  + F + Y  T+  ++ T   ++D + 
Sbjct: 16  MDPNQNVK----CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQR 70
Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEH 119
           + L +WDT+G   + ++    Y  +D  ++ +D++  +T +S L+ W+ E          
Sbjct: 71  IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEI--------Q 122
Query: 120 EACP---FVLLGNKIDTDGGSSRVV 141
           E CP    +L+G K D     S +V
Sbjct: 123 EFCPNTKMLLVGCKSDLRTDVSTLV 147

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 63/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 63/121 (52%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNT----PIILVGTKL 117
Query: 132 D 132
           D
Sbjct: 118 D 118

>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 = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 40/145 (27%), Positives = 76/145 (52%), Gaps = 17/145 (11%)
Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           MD + N+K     K++V+GDS  GKT+L++ +  + F + Y  T+  ++ T   ++D + 
Sbjct: 21  MDPNQNVK----CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQR 75
Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEH 119
           + L +WDT+G   + ++    Y  +D  ++ +D++  +T +S L+ W+ E          
Sbjct: 76  IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEI--------Q 127
Query: 120 EACP---FVLLGNKIDTDGGSSRVV 141
           E CP    +L+G K D     S +V
Sbjct: 128 EFCPNTKMLLVGCKSDLRTDVSTLV 152

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N    +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 89
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 144
Query: 132 D 132
           D
Sbjct: 145 D 145

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAG E
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLE 65
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 66  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 120
Query: 132 D 132
           D
Sbjct: 121 D 121

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/120 (30%), Positives = 65/120 (54%), Gaps = 7/120 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQED 85
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + V+   + E++ + W  E +K   P      P +L+ NK D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPE-VKHFCPN----VPIILVANKKD 140

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/160 (30%), Positives = 78/160 (48%), Gaps = 7/160 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+ +LG   VGK+SL  Q+V  +F   Y  TI   F TK + ++ +   LQ+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 61
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           +      +    +  +LVY V   K+FE ++    + L      +    P +L+GNK D 
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 118
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                RV+  ++  +  A   N  + E+SAKE+    + F
Sbjct: 119 H--MERVISYEEG-KALAESWNAAFLESSAKENQTAVDVF 155

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 65/120 (54%), Gaps = 7/120 (5%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  +++  ++++D K V L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDTAGQED 65
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 120

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 52/169 (30%), Positives = 81/169 (47%), Gaps = 11/169 (6%)
Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M +    K+ +LG   VGK+SL  Q+V  +F   Y  TI   F TK + ++ +   LQ+ 
Sbjct: 1   MPQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLV 59
Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAGQ+ +      +    +  +LVY V   K+FE ++    + L      +    P +L
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIML 116
Query: 127 LGNKIDTDGGSSRVVP--QKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           +GNK D      RV+   + KAL   A   N  + E+SAKE+    + F
Sbjct: 117 VGNKKDLH--MERVISYEEGKAL---AESWNAAFLESSAKENQTAVDVF 160

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLE 89
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E             P +L+G K+
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-----PNTPIILVGTKL 144
Query: 132 D 132
           D
Sbjct: 145 D 145

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 79/164 (48%), Gaps = 9/164 (5%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L +V++LGD GVGKTSL + +   K  +     +G D   + L +D +  TL + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFA-GKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEA 62
Query: 72  ERFQSLGS--AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN 129
           E+     S  +  +G    V+VY +  + +FES    R + L++    +H   P +L+GN
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQ-LRRTHQADH--VPIILVGN 119
Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           K D        V + +A   CA   +  + ETSA    N+ E F
Sbjct: 120 KADLARCREVSVEEGRA---CAVVFDCKFIETSATLQHNVAELF 160

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/160 (30%), Positives = 78/160 (48%), Gaps = 7/160 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+ +LG   VGK+SL  Q+V  +F   Y  TI   F TK + ++ +   LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           +      +    +  +LVY V   K+FE ++    + L      +    P +L+GNK D 
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 123
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                RV+  ++  +  A   N  + E+SAKE+    + F
Sbjct: 124 H--MERVISYEEG-KALAESWNAAFLESSAKENQTAVDVF 160

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 15/171 (8%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +++GD  VGKTSL+  Y  N +  +Y  T   +F +  + +D + V LQ+ DTAGQ+
Sbjct: 21  VKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQD 79
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK-- 130
            F  L    Y   D  +L + V    +F   QN  E+++ +      +A P +L+G +  
Sbjct: 80  EFDKLRPLCYTNTDIFLLCFSVVSPSSF---QNVSEKWVPEIRCHCPKA-PIILVGTQSD 135
Query: 131 --------IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                   I+ D    + VP++ A           Y E SA    N+ E F
Sbjct: 136 LREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 63/124 (50%), Gaps = 7/124 (5%)
Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           + L+K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTA
Sbjct: 153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTA 211
Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLG 128
           G E +  L    Y   D  ++ + +    +F  ++  W  E ++   P      P +L+G
Sbjct: 212 GLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPE-VRHHCPN----TPIILVG 266
Query: 129 NKID 132
            K+D
Sbjct: 267 TKLD 270

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 63/124 (50%), Gaps = 7/124 (5%)
Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           + L+K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTA
Sbjct: 153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTA 211
Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLG 128
           G E +  L    Y   D  ++ + +    +F  ++  W  E ++   P      P +L+G
Sbjct: 212 GLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPE-VRHHCPN----TPIILVG 266
Query: 129 NKID 132
            K+D
Sbjct: 267 TKLD 270

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/124 (29%), Positives = 63/124 (50%), Gaps = 7/124 (5%)
Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           + L+K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTA
Sbjct: 153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTA 211
Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLG 128
           G E +  L    Y   D  ++ + +    +F  ++  W  E ++   P      P +L+G
Sbjct: 212 GLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPE-VRHHCPN----TPIILVG 266
Query: 129 NKID 132
            K+D
Sbjct: 267 TKLD 270

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 70/132 (53%), Gaps = 13/132 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+GDS  GKT+L++ +  + F + Y  T+  ++ T   ++D + + L +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPY 67
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  ++ +D++  +T +S L+ W+ E          E CP    +L+G 
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEI--------QEFCPNTKMLLVGC 119
Query: 130 KIDTDGGSSRVV 141
           K D     S +V
Sbjct: 120 KSDLRTDVSTLV 131

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/129 (29%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL + DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLRDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 55/177 (31%), Positives = 93/177 (52%), Gaps = 19/177 (10%)
Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M +   +K+ + G +GVGK++L+ +++  +F  +Y  T+ + +   +  +DD++V+++I
Sbjct: 22  SMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEI 80
Query: 66  WDTAGQE-RFQSLGSAFYRGADCCVLVYDVNVQKTFES---LQNWREEFLKQADPGEHEA 121
            DTAGQE   Q  G    R  +  VLVYD+  + +FE    L+N  +E  K  +      
Sbjct: 81  LDTAGQEDTIQREGH--MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKN------ 132
Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA-KEDCNIDEAF--LC 175
              +L+GNK D D   SR V  ++  E  A      ++E SA   + NI E F  LC
Sbjct: 133 VTLILVGNKADLD--HSRQVSTEEG-EKLATELACAFYECSACTGEGNITEIFYELC 186

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 64/122 (52%), Gaps = 7/122 (5%)
Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           +LK +V+GD  VGKT L+  Y  + F ++Y  T+  D     + +  K   L ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQ 76
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNK 130
           E +  L    Y   D  ++ + V    +F+++ + W  E LK+  P      PF+L+G +
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPE-LKEYAPN----VPFLLIGTQ 131
Query: 131 ID 132
           ID
Sbjct: 132 ID 133

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/180 (26%), Positives = 83/180 (46%), Gaps = 17/180 (9%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT L+     ++F + Y  T+  ++V  ++++D K V L +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGLED 68
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKID 132
           +  L    Y   D  ++ + ++   + E++ + W  E +K   P      P +L+GNK D
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKKD 123
Query: 133 --TDGGSSR--------VVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
              D  + R         V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 124 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 183

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 46/187 (24%), Positives = 84/187 (44%), Gaps = 20/187 (10%)
Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           N  RR   K++++GD   GKT L+      +F + Y  T+  ++V  ++++D + V L +
Sbjct: 7   NSIRR---KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENYVA-DVEVDGRRVELAL 62
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPF 124
           WDTAGQE +  L    Y  ++  ++ + +++  + E++Q  W  E L        +  P 
Sbjct: 63  WDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFC-----QGVPI 117
Query: 125 VLLGNKIDTDGGSSRV----------VPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           +L+G K+D       +          V  ++        G   Y+E SAK    + E F 
Sbjct: 118 ILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFE 177
Query: 175 CVAEIAL 181
                +L
Sbjct: 178 AATRASL 184

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y   +  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>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 = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGK  L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 69
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 124
Query: 132 D 132
           D
Sbjct: 125 D 125

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGLE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NK   +Y  T+  ++    + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQE 62
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 117
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 118 DLRDDPSTI 126

>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 = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 37/129 (28%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  ++    + +  +  TL ++DTAG E
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGLE 66
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +FE++ + W  E             PF+L+G +I
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-----PKTPFLLVGTQI 121
Query: 132 DTDGGSSRV 140
           D     S +
Sbjct: 122 DLRDDPSTI 130

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/160 (29%), Positives = 77/160 (48%), Gaps = 7/160 (4%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+ +LG   VGK+SL  Q+V  +F      TI   F TK + ++ +   LQ+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           +      +    +  +LVY V   K+FE ++    + L      +    P +L+GNK D 
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQ---IPIMLVGNKKDL 121
Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                RV+  ++  +  A   N  + E+SAKE+    + F
Sbjct: 122 H--MERVISYEEG-KALAESWNAAFLESSAKENQTAVDVF 158

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 57.8 bits (138), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 40/140 (28%), Positives = 64/140 (45%), Gaps = 26/140 (18%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  ++ +  + +D K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE 64
Query: 73  RFQSLGSAFY--------------RG-----ADCCVLVYDVNVQKTFESLQ-NWREEFLK 112
            +  L    Y              RG     AD  ++ + +    +FE+++  W  E   
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRH 124
Query: 113 QADPGEHEACPFVLLGNKID 132
                     P +L+G K+D
Sbjct: 125 HC-----PNTPIILVGTKLD 139

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 66/123 (53%), Gaps = 13/123 (10%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT+++     + + + Y  T+  ++ T  L+ +++ V L +WDT+G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPY 71
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  +L +D++  +T +S L+ WR E L        + CP    +L+G 
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEIL--------DYCPSTRVLLIGC 123
Query: 130 KID 132
           K D
Sbjct: 124 KTD 126

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 57.0 bits (136), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 66/123 (53%), Gaps = 13/123 (10%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT+++     + + + Y  T+  ++ T  L+ +++ V L +WDT+G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPY 70
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  +L +D++  +T +S L+ WR E L        + CP    +L+G 
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEIL--------DYCPSTRVLLIGC 122
Query: 130 KID 132
           K D
Sbjct: 123 KTD 125

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 44/159 (27%), Positives = 77/159 (48%), Gaps = 9/159 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++ ++G    GKT+ +N     +F++    T+G  F  +++   +  VT+++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQP 78
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+   + RG    V + D   Q+  E+ +N   E     D  + +  P ++LGNK D
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKN---ELHNLLDKPQLQGIPVLVLGNKRD 135
Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID 170
             G    + + +K  L     R  I  +  S KE  NID
Sbjct: 136 LPGALDEKELIEKMNLSAIQDR-EICCYSISCKEKDNID 173

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 66/123 (53%), Gaps = 13/123 (10%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD   GKT+++     + + + Y  T+  ++ T  L+ +++ V L +WDT+G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPY 87
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACP---FVLLGN 129
           + ++    Y  +D  +L +D++  +T +S L+ WR E L        + CP    +L+G 
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEIL--------DYCPSTRVLLIGC 139
Query: 130 KID 132
           K D
Sbjct: 140 KTD 142

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/159 (27%), Positives = 77/159 (48%), Gaps = 9/159 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++ ++G    GKT+ +N     +F++    T+G  F  +++   +  VT+++WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQP 87
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+   + RG    V + D   Q+  E+ +N   E     D  + +  P ++LGNK D
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKN---ELHNLLDKPQLQGIPVLVLGNKRD 144
Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID 170
             G    + + +K  L     R  I  +  S KE  NID
Sbjct: 145 LPGALDEKELIEKMNLSAIQDR-EICCYSISCKEKDNID 182

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 63/120 (52%), Gaps = 7/120 (5%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++ ++G    GKT+ +N     +FS+    T+G  F  +++   +  VT++IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVG--FNMRKVTKGN--VTIKIWDIGGQP 78
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+   + RG +  V + D   ++  E+ +N   E     D  + +  P ++LGNK D
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEASRN---ELHNLLDKPQLQGIPVLVLGNKRD 135

>pdb|3IHW|A Chain A, Crystal Structure Of The Ras-Like Domain Of Centg3 Length = 184

Iteration: 1
 Score = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 82/174 (47%), Gaps = 12/174 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV ++G+   GK++L+++Y+   + Q+ ++  G  F  KE+ +D +   L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQE-ESPEGGRF-KKEIVVDGQSYLLLIRDEGGPP 78
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             Q     F    D  V V+ +  + +F+++ N+   FL+          P VL+G +  
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNY---FLRLCSFRNASEVPMVLVGTQDA 130
Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE--IALKNE 184
               + RV+   +A +         Y+ET A    N++  F  VA+  +AL+ +
Sbjct: 131 ISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRKK 184

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 46/155 (29%), Positives = 71/155 (45%), Gaps = 19/155 (12%)
Query: 25  KTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG 84
           K+SL+ ++V   F   Y  TI  D   + +  D  + TLQI DT G  +F ++       
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTI-EDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 85  ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID-----TDGGSSR 139
               +LV+ V  +++ E L    +  ++    G  E  P +L+GNK D      D   ++
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIK--GSVEDIPVMLVGNKCDETQREVDTREAQ 137
Query: 140 VVPQKKALEW-CAYRGNIPYFETSAKEDCNIDEAF 173
            V Q    EW CA      + ETSAK + N+ E F
Sbjct: 138 AVAQ----EWKCA------FMETSAKMNYNVKELF 162

>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 = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 38/135 (28%), Positives = 62/135 (45%), Gaps = 11/135 (8%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQ--QYKATIGADFVTKELQMDDKL---VTLQI 65
           N  K+ ++G++G GKT+L+ Q    K S      AT+G D     +Q+ DK    + L +
Sbjct: 1   NRXKLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNV 60
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPF 124
           WD AG+E F S    F       + VYD++  Q   ++ + W      +A      + P 
Sbjct: 61  WDFAGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARA-----SSSPV 115
Query: 125 VLLGNKIDTDGGSSR 139
           +L+G  +D      R
Sbjct: 116 ILVGTHLDVSDEKQR 130

>pdb|2BMJ|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/173 (24%), Positives = 76/173 (43%), Gaps = 22/173 (12%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKF-------SQQYKATIGADFVTKELQMDDKLVTLQI 65
           L++ VLGD+  GK+SL+++++   +       S+QYK         KE+ +D +   + I
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYK---------KEMLVDGQTHLVLI 58
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            + AG     +  + F   AD  + V+ +  + +F+++     +       G        
Sbjct: 59  REEAG-----APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRG-GLALA 112
Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           L+G +      S RVV   +A   CA      Y+ET A    N+D  F  VA+
Sbjct: 113 LVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQ 165

>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 = 50.4 bits (119), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 37/132 (28%), Positives = 61/132 (46%), Gaps = 11/132 (8%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQ--QYKATIGADFVTKELQMDDKL---VTLQIWDT 68
           K+ ++G++G GKT+L+ Q    K S      AT+G D     +Q+ DK    + L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           AG+E F S    F       + VYD++  Q   ++ + W      +A      + P +L+
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARA-----SSSPVILV 116
Query: 128 GNKIDTDGGSSR 139
           G  +D      R
Sbjct: 117 GTHLDVSDEKQR 128

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 46/183 (25%), Positives = 84/183 (45%), Gaps = 9/183 (4%)
Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M   ++ KV++LG  GVGK++L    ++       +A        + + +D +  +L +
Sbjct: 1   SMSDESVYKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMV 58
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
           +D   Q+  + L        D  V+VY V  + +FE     R + L++A   + +  P +
Sbjct: 59  YDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQ-LRRAR--QTDDVPII 115
Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKNE 184
           L+GNK D        V + +A   CA   +  + ETSA    N+   F   V +I L+ +
Sbjct: 116 LVGNKSDLVRSREVSVDEGRA---CAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRD 172
Query: 185 HKD 187
            K+
Sbjct: 173 SKE 175

>pdb|4BAS|A Chain A, Structure Of The Arl6 Bbs3 Small Gtpase From Trypanosoma Brucei With Bound Nucleotide Analogue Gppnp Length = 199

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 43/182 (23%), Positives = 79/182 (43%), Gaps = 14/182 (7%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQY-KATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L+V++ G    GKT+++NQ    + S ++  AT+G +  T E       V   ++D  G 
Sbjct: 18  LQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVETFE----KGRVAFTVFDMGGA 73
Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQAD-----PGEHEACPFVL 126
           ++F+ L   +Y   D  + V D +       +++  +  LK  D     PG     PF+ 
Sbjct: 74  KKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGR-VPFLF 132
Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY--FETSAKEDCNIDEAFLCVAEIALKNE 184
             NK+D   G+       + L+     G+ P+  F ++  +   + E F  + E A +  
Sbjct: 133 FANKMDA-AGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQS 191
Query: 185 HK 186
            K
Sbjct: 192 GK 193

>pdb|2IWR|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 42/173 (24%), Positives = 75/173 (43%), Gaps = 22/173 (12%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKF-------SQQYKATIGADFVTKELQMDDKLVTLQI 65
           L++ VLGD+  GK+SL+++++   +       S+QYK         KE+ +D +   + I
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYK---------KEMLVDGQTHLVLI 58
Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            + AG     +  + F   AD  + V+ +  + +F+++     +       G        
Sbjct: 59  REEAG-----APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRG-GLALA 112
Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           L+G +      S RVV   +A    A      Y+ET A    N+D  F  VA+
Sbjct: 113 LVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQ 165

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 45/177 (25%), Positives = 81/177 (45%), Gaps = 9/177 (5%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++ KV++LG  GVGK++L    ++       +A        + + +D +  +L ++D   
Sbjct: 6   SVYKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWE 63
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           Q+  + L        D  V+VY V  + +FE     R + L++A   + +  P +L+GNK
Sbjct: 64  QDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQ-LRRAR--QTDDVPIILVGNK 120
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKNEHK 186
            D        V + +A   CA   +  + ETSA    N+   F   V +I L+ + K
Sbjct: 121 SDLVRSREVSVDEGRA---CAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 174

>pdb|3DPU|A Chain A, Roccor Domain Tandem Of Rab Family Protein (Roco) Length = 535

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 40/141 (28%), Positives = 61/141 (43%), Gaps = 18/141 (12%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKE------LQMDDKL--VTLQ 64
           +KV ++GD   GKTSL+ Q +   F  +   T G + VTK+      L+ DD+L      
Sbjct: 42  IKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFH 101
Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
            WD  GQE   +    F   +   +L+ D    +T  +   W     K          P 
Sbjct: 102 FWDFGGQEIMHASHQFFMTRSSVYMLLLD---SRTDSNKHYWLRHIEKYGG-----KSPV 153
Query: 125 VLLGNKIDTDGGSSRVVPQKK 145
           +++ NKID +   S  + QKK
Sbjct: 154 IVVMNKIDEN--PSYNIEQKK 172

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 41/163 (25%), Positives = 74/163 (45%), Gaps = 8/163 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++ KV++LG  GVGK++L    ++       +A        + + +D +  +L ++D   
Sbjct: 1   SVYKVLLLGAPGVGKSALAR--IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWE 58
Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           Q+  + L        D  V+VY V  + +FE     R + L++A   + +  P +L+GNK
Sbjct: 59  QDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQ-LRRAR--QTDDVPIILVGNK 115
Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            D        V + +A   CA   +  + ETSA    N+   F
Sbjct: 116 SDLVRSREVSVDEGRA---CAVVFDCKFIETSAALHHNVQALF 155

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 41/164 (25%), Positives = 73/164 (44%), Gaps = 7/164 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
            + KV++LG+SGVGK++L   +   +    ++     D   + + +D + VTL ++D   
Sbjct: 11  GVFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIWE 70
Query: 71  QERFQS-LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN 129
           Q      L     +  D  ++V+ V  +++F  +    E  L+      H   P +L+GN
Sbjct: 71  QGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVP---ETLLRLRAGRPHHDLPVILVGN 127
Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           K  +D   SR V  ++         +  + ETSA    N  E F
Sbjct: 128 K--SDLARSREVSLEEGRHLAGTL-SCKHIETSAALHHNTRELF 168

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 46/179 (25%), Positives = 79/179 (44%), Gaps = 18/179 (10%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL---QIW- 66
            + KV+++G+SGVGK++L   +   +    ++     D   + + +D + VTL    IW 
Sbjct: 22  GIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWE 81
Query: 67  --DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
             D  G  R   L +      D  ++V+ V  +++F  +    E  L+      H   P 
Sbjct: 82  QGDAGGWLRDHCLQT-----GDAFLIVFSVTDRRSFSKVP---ETLLRLRAGRPHHDLPV 133
Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALK 182
           +L+GNK  +D   SR V  ++         +  + ETSA    N  E F   V +I L+
Sbjct: 134 ILVGNK--SDLARSREVSLEEGRHLAGTL-SCKHIETSAALHHNTRELFEGAVRQIRLR 189

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 40/164 (24%), Positives = 73/164 (44%), Gaps = 7/164 (4%)
Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
            + KV+++G+SGVGK++L   +   +    ++     D   + + +D + VTL ++D   
Sbjct: 1   GVFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWE 60
Query: 71  QERFQS-LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN 129
           Q      L     +  D  ++V+ V  +++F  +    E  L+      H   P +L+GN
Sbjct: 61  QGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVP---ETLLRLRAGRPHHDLPVILVGN 117
Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
           K  +D   SR V  ++         +  + ETSA    N  E F
Sbjct: 118 K--SDLARSREVSLEEGRHLAGTL-SCKHIETSAALHHNTRELF 158

>pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Complexed With Gdp Length = 594

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 46/189 (24%), Positives = 70/189 (37%), Gaps = 50/189 (26%)
Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD--------- 57
           MK R+ + V VLG    GKT+L++    +  + +    I       E+ MD         
Sbjct: 1   MKIRSPI-VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDF 59
Query: 58  -------DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN------VQKTFESLQ 104
                  + L  L   DT G E F +L       AD  +L+ D+N       Q+    L+
Sbjct: 60  LKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILR 119
Query: 105 NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK 164
            +R               PFV+  NKID   G            W  + G  P+ ET +K
Sbjct: 120 MYR--------------TPFVVAANKIDRIHG------------WRVHEGR-PFMETFSK 152
Query: 165 EDCNIDEAF 173
           +D  + +  
Sbjct: 153 QDIQVQQKL 161

>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 = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/120 (23%), Positives = 55/120 (45%), Gaps = 8/120 (6%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G    GKTS++ +    +       TIG +  T E     K ++  +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEIVTTI-PTIGFNVETVEY----KNISFTVWDVGGQD 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +Y+     + V D N +   + +   REE +K  +  E      ++  NK D
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDSNDR---DRIGEAREELMKMLNEDEMRNAILLVFANKHD 129

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/122 (25%), Positives = 59/122 (48%), Gaps = 8/122 (6%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G    GKT+++ Q++ N+       TIG++   +E+ + +      +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFLMNEVVHT-SPTIGSN--VEEIVVKN--THFLMWDIGGQES 72
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            +S  + +Y   +  +LV D ++ +  E L   +EE  +     +      ++  NK D 
Sbjct: 73  LRSSWNTYYSNTEFIILVVD-SIDR--ERLAITKEELYRMLAHEDLRKAAVLIFANKQDM 129
Query: 134 DG 135
            G
Sbjct: 130 KG 131

>pdb|1G7R|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Length = 594

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 46/182 (25%), Positives = 70/182 (38%), Gaps = 51/182 (28%)
Query: 15  VIVLGDSGVGKTSLMNQY----VYNKFSQQYKATIGA-------------DFVTKELQMD 57
           V VLG    GKT+L++      V ++ +      IGA             DF+ K+  + 
Sbjct: 8   VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPXDVIEGICGDFL-KKFSIR 66
Query: 58  DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN------VQKTFESLQNWREEFL 111
           + L  L   DT G E F +L       AD  +L+ D+N       Q+    L+ +R    
Sbjct: 67  ETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRXYR---- 122
Query: 112 KQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
                      PFV+  NKID   G            W  + G  P+ ET +K+D  + +
Sbjct: 123 ----------TPFVVAANKIDRIHG------------WRVHEGR-PFXETFSKQDIQVQQ 159
Query: 172 AF 173
Sbjct: 160 KL 161

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/157 (26%), Positives = 77/157 (49%), Gaps = 18/157 (11%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ- 71
           + + +LG  G GK++L  +++  +F  +Y   +  D  + E  +D + V L++ DTA   
Sbjct: 22  VNLAILGRRGAGKSALTVKFLTKRFISEYDPNL-EDTYSSEETVDHQPVHLRVMDTADLD 80
Query: 72  -----ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
                ER+ +   AF       ++VY V+ +++F+S  ++ E     A   +  + P +L
Sbjct: 81  TPRNCERYLNWAHAF-------LVVYSVDSRQSFDSSSSYLELLALHAKETQ-RSIPALL 132
Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA 163
           LGNK+D      R V + + +      G + +FE SA
Sbjct: 133 LGNKLDM--AQYRQVTKAEGVALAGRFGCL-FFEVSA 166

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 66/148 (44%), Gaps = 12/148 (8%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G  G GKT+++ +    +       TIG +  T +     K ++  +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVITTI-PTIGFNVETVQY----KNISFTVWDVGGQD 55
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R +SL   +YR  +  + V D N +         RE   +  +  E     +++  NK D
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEA---REVMQRMLNEDELRNAAWLVFANKQD 112
Query: 133 -TDGGSSRVVPQKKALEWCAYRGNIPYF 159
             +  S+  + +K  L     R   P+F
Sbjct: 113 LPEAMSAAEITEKLGLHSIRNR---PWF 137

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/158 (23%), Positives = 70/158 (44%), Gaps = 20/158 (12%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G    GKT+++ +    +       TIG +  T E +     ++  +WD  GQ+
Sbjct: 18  VRILMVGLDAAGKTTILYKVKLGEVVTTI-PTIGFNVETVEFRN----ISFTVWDVGGQD 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +Y   D  + V D N +   E + + REE  +  +  E +    ++  NK D
Sbjct: 73  KIRPLWRHYYSNTDGLIFVVDSNDR---ERIDDAREELHRMINEEELKDAIILVFANKQD 129
Query: 133 T-DGGSSRVVPQKKAL------EW-----CAYRGNIPY 158
             +  S+  V +K  L       W     CA RG+  Y
Sbjct: 130 LPNAMSAAEVTEKLHLNTIRERNWFIQSTCATRGDGLY 167

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 56/119 (47%), Gaps = 8/119 (6%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G    GKT+++ Q+  N+       TIG++   +E+ +++      +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSN--VEEIVINN--TRFLMWDIGGQES 72
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 128

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 56/119 (47%), Gaps = 8/119 (6%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G    GKT+++ Q+  N+       TIG++   +E+ +++      +WD  GQE 
Sbjct: 18  KVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSN--VEEIVINN--TRFLMWDIGGQES 72
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 128

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 56/119 (47%), Gaps = 8/119 (6%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G    GKT+++ Q+  N+       TIG++   +E+ +++      +WD  GQE 
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSN--VEEIVINN--TRFLMWDIGGQES 77
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 133

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 56/119 (47%), Gaps = 8/119 (6%)
Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KVI++G    GKT+++ Q+  N+       TIG++   +E+ +++      +WD  GQE 
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSN--VEEIVINN--TRFLMWDIGGQES 78
Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 79  LRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 134

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 66/148 (44%), Gaps = 12/148 (8%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G  G GKT+++ +    +       TIG +  T +     K ++  +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITTI-PTIGFNVETVQY----KNISFTVWDVGGQD 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R +SL   +YR  +  + V D N +         RE   +  +  E     +++  NK D
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVDSNDRSRIGEA---REVMQRMLNEDELRNAAWLVFANKQD 129
Query: 133 T-DGGSSRVVPQKKALEWCAYRGNIPYF 159
             +  S+  + +K  L     R   P+F
Sbjct: 130 LPEAMSAAEITEKLGLHSIRNR---PWF 154

>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 = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 66/148 (44%), Gaps = 12/148 (8%)
Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G  G GKT+++ +    +       TIG +  T +     K ++  +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITTI-PTIGFNVETVQY----KNISFTVWDVGGQD 72
Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           R +SL   +YR  +  + V D N +         RE   +  +  E     +++  NK D
Sbjct: 73  RIRSLWRHYYRNTEGVIFVIDSNDRSRIGEA---REVMQRMLNEDELRNAVWLVFANKQD 129
Query: 133 T-DGGSSRVVPQKKALEWCAYRGNIPYF 159
             +  S+  + +K  L     R   P+F
Sbjct: 130 LPEAMSAAEITEKLGLHSIRNR---PWF 154

>pdb|3QQ5|A Chain A, Crystal Structure Of The [fefe]-Hydrogenase Maturation Protein Hydf Length = 423

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 39/131 (29%), Positives = 55/131 (41%), Gaps = 23/131 (17%)
Query: 15  VIVLGDSGVGKTSLMNQYVYNKFS--QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++V G   VGK+S MN  V    S    Y  T   D V K +++   +  + + DT G +
Sbjct: 37  IVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTT-TDPVYKSMEL-HPIGPVTLVDTPGLD 94
Query: 73  RFQSLG--------SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
               LG          FYR ADC +LV D       + + N  +E             PF
Sbjct: 95  DVGELGRLRVEKARRVFYR-ADCGILVTDSAPTPYEDDVVNLFKEM----------EIPF 143
Query: 125 VLLGNKIDTDG 135
           V++ NKID  G
Sbjct: 144 VVVVNKIDVLG 154

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	210
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	1e-107
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-104
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-102
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	9e-86
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-80
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-78
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-76
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	3e-73
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-73
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	7e-72
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	3e-69
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-68
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-68
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-68
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-68
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	3e-68
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	3e-68
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	3e-68
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-68
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	3e-68
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	4e-68
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	4e-68
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	4e-68
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	6e-68
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	6e-68
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	8e-68
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-67
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-67
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-67
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-67
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	3e-67
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	4e-67
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	6e-67
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	6e-67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-66
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-66
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-66
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	6e-66
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	8e-66
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	8e-66
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	9e-66
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	9e-66
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	5e-65
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	6e-65
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	3e-64
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	5e-61
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-60
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	6e-60
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-59
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-59
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	4e-59
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	5e-59
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-58
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	5e-58
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	6e-58
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-57
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-57
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	3e-57
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	4e-57
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-57
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	9e-57
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	1e-56
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	2e-55
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-54
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	3e-54
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	3e-53
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-52
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-51
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-50
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	8e-50
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	5e-42
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-38
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	3e-38
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	3e-38
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-36
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	7e-36
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-35
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	7e-35
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-33
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	3e-33
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	7e-33
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	8e-33
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-31
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	6e-28
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-27
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-19
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	1e-16
3llu_A	196	RAS-related GTP-binding protein C; structural geno	4e-15
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	2e-12
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	5e-12
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-11
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-11
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	2e-11
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	3e-11
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	4e-11
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	3e-10
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	3e-10
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	4e-10
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-09
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	4e-09
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	5e-09
2fh5_B	214	SR-beta, signal recognition particle receptor beta	6e-09
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	2e-08
2ged_A	193	SR-beta, signal recognition particle receptor beta	4e-08
1nrj_B	218	SR-beta, signal recognition particle receptor beta	8e-08
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	6e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	2e-05
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	5e-05
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	6e-05
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	7e-04

>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 =  304 bits (781), Expect = e-107
 Identities = 121/209 (57%), Positives = 150/209 (71%), Gaps = 7/209 (3%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
             +++ LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QI
Sbjct: 2   TSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
           WDTAGQERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV
Sbjct: 62  WDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFV 121

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
           +LGNKID +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E 
Sbjct: 122 VLGNKIDLE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET 178

Query: 186 KDIYY----QPQGISETVSEVEQRGGCAC 210
           +   Y    +P  + +          C+C
Sbjct: 179 EVELYNEFPEPIKLDKNERAKASAESCSC 207

>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 =  297 bits (762), Expect = e-104
 Identities = 90/173 (52%), Positives = 119/173 (68%), Gaps = 3/173 (1%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VT+QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LGNKI
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           D      R V  ++A  WC   G+ PYFETSAK+  N+  AF       L  E
Sbjct: 127 DIS---ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE 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 =  292 bits (749), Expect = e-102
 Identities = 106/181 (58%), Positives = 138/181 (76%), Gaps = 2/181 (1%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQ 64
           + +++N+LKVI+LGDSGVGKTSLM++YV +K+SQQYKATIGADF+TKE+ +D DK+ T+Q
Sbjct: 2   SSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQ 61

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           +WDTAGQERFQSLG AFYRGADCCVLVYDV    +FE++++WR+EFL  A+    E  PF
Sbjct: 62  VWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPF 121

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           V+LGNKID +  S ++V +K A E     G+IP F TSAK   N+D AF  +A  AL+  
Sbjct: 122 VILGNKIDAE-ESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN 180

Query: 185 H 185
            
Sbjct: 181 Q 181

>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 =  249 bits (639), Expect = 9e-86
 Identities = 62/171 (36%), Positives = 104/171 (60%), Gaps = 8/171 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
            +K++V+G+  VGK+S++ +Y    F++ YK TIG DF+ +++Q++D+ V L +WDTAGQ
Sbjct: 5   AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E F ++  A+YRGA  CVLV+    +++FE++ +WRE+ + +         P  L+ NKI
Sbjct: 65  EEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD-----IPTALVQNKI 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           D        +  ++A    A R  + ++ TS KED N+ E F  +AE  L+
Sbjct: 120 DLL--DDSCIKNEEAEGL-AKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  237 bits (606), Expect = 4e-80
 Identities = 52/180 (28%), Positives = 89/180 (49%), Gaps = 8/180 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVY--NKFSQQYKATIGADFVTKELQMDDKLVTLQIW--D 67
             KV V+G++ VGK++L++ +    +KF + Y  T G + V   + + D  V+++++  D
Sbjct: 20  RCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLD 79

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
           TAG + ++   S ++ G    +LV+DV+  ++FES + W E  LK A P        VL+
Sbjct: 80  TAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFEL-LKSARPDRERPLRAVLV 138

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC-NIDEAFLCVAEIALKNEHK 186
            NK D        V    A +W A    + +F+ SA     + D  FL +A    +N   
Sbjct: 139 ANKTDLP-PQRHQVRLDMAQDW-ATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYED 196

>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 =  231 bits (591), Expect = 4e-78
 Identities = 41/180 (22%), Positives = 77/180 (42%), Gaps = 10/180 (5%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
             +   LKV ++G+   GK++L+++Y+   + Q+  +  G  F  KE+ +D +   L I 
Sbjct: 15  YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRF-KKEIVVDGQSYLLLIR 72

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           D  G    Q     F    D  V V+ +  + +F+++ N+        +       P VL
Sbjct: 73  DEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNA---SEVPMVL 124

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           +G +      + RV+   +A +         Y+ET A    N++  F  VA+  +    K
Sbjct: 125 VGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRKK 184

>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 =  228 bits (584), Expect = 1e-76
 Identities = 48/189 (25%), Positives = 95/189 (50%), Gaps = 10/189 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQ
Sbjct: 15  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 74

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E+F  L   +Y  A C ++++DV  + T++++ NW  + ++  +       P VL GNK+
Sbjct: 75  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-----NIPIVLCGNKV 129

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D      +V  +         + N+ Y++ SAK + N ++ FL +A   + + + +    
Sbjct: 130 DIK--DRKVKAKSIVF---HRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAM 184

Query: 192 PQGISETVS 200
           P      V 
Sbjct: 185 PALAPPEVV 193

>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 =  219 bits (561), Expect = 3e-73
 Identities = 55/182 (30%), Positives = 84/182 (46%), Gaps = 8/182 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGA-DFVTKELQMDDKLVTLQIWDTAG 70
             K+ ++GD GVGKT+ +N+ +  +F + Y AT+GA +     L     ++   +WDTAG
Sbjct: 11  TYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAG 70

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QE+   L   +Y GA   +L +DV  + T ++L  W +EF            P V+  NK
Sbjct: 71  QEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNE----APIVVCANK 126

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYY 190
           ID    + + + +K  +E      N  YFE SAK   N    FL +A I           
Sbjct: 127 IDIK--NRQKISKKLVMEV-LKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVS 183

Query: 191 QP 192
             
Sbjct: 184 NV 185

>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 =  218 bits (557), Expect = 4e-73
 Identities = 58/176 (32%), Positives = 85/176 (48%), Gaps = 5/176 (2%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL-VTLQIWDTAG 70
            LK++VLGD   GKTSL   +    F +QYK TIG DF  + + +   L VTLQIWD  G
Sbjct: 6   QLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGG 65

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           Q     +   +  GA   +LVYD+   ++FE+L++W     K ++  E +     L+GNK
Sbjct: 66  QTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPL-VALVGNK 124

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           ID +    R +  +K L +            SAK   ++   F  VA   L  +  
Sbjct: 125 IDLE--HMRTIKPEKHLRF-CQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLN 177

>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 =  215 bits (549), Expect = 7e-72
 Identities = 41/180 (22%), Positives = 77/180 (42%), Gaps = 8/180 (4%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M+    L++ VLGD+  GK+SL+++++   + Q  + T    +  KE+ +D +   + I 
Sbjct: 2   MRSIPELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY-KKEMLVDGQTHLVLIR 59

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           + AG    +     F   AD  + V+ +  + +F+++     +       G        L
Sbjct: 60  EEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGR-GGLALAL 113

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           +G +      S RVV   +A    A      Y+ET A    N+D  F  VA+  +    +
Sbjct: 114 VGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQ 173

>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 =  208 bits (532), Expect = 3e-69
 Identities = 59/172 (34%), Positives = 101/172 (58%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K I++GD GVGK+ L++Q+   KF      TIG +F T+ +++  + + LQIWDTAGQ
Sbjct: 15  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 74

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YRGA   ++VYD+  + T+  L +W  +     +P        +L+GNK 
Sbjct: 75  ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN----TVIILIGNKA 130

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  + R V  ++A ++ A    + + E SAK   N+++AFL  A+   +N
Sbjct: 131 DLE--AQRDVTYEEAKQF-AEENGLLFLEASAKTGENVEDAFLEAAKKIYQN 179

>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 =  206 bits (527), Expect = 1e-68
 Identities = 64/167 (38%), Positives = 101/167 (60%), Gaps = 7/167 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             KV++LG+  VGKTSL+ +Y  NKF+ ++  T+GA F+TK+L +  K V L IWDTAGQ
Sbjct: 6   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQ 65

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF +LG  +YR ++  +LVYD+  + +F+ ++NW +E  K             ++GNKI
Sbjct: 66  ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNE----ICLCIVGNKI 121

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D +    R V  ++A  + A      ++ TSAK++  I+E FL + +
Sbjct: 122 DLE--KERHVSIQEAESY-AESVGAKHYHTSAKQNKGIEELFLDLCK 165

>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 =  207 bits (528), Expect = 1e-68
 Identities = 63/172 (36%), Positives = 102/172 (59%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D K + LQIWDTAGQ
Sbjct: 21  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ 80

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E F+S+  ++YRGA   +LVYD+  ++TF  L +W E+  + +          +L+GNK 
Sbjct: 81  ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN----MVIMLIGNKS 136

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  S R V +++   + A    + + ETSAK  CN++EAF+  A+   + 
Sbjct: 137 DLE--SRRDVKREEGEAF-AREHGLIFMETSAKTACNVEEAFINTAKEIYRK 185

>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 =  207 bits (528), Expect = 2e-68
 Identities = 66/186 (35%), Positives = 102/186 (54%), Gaps = 8/186 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
            LK++++G+SGVGK+SL+ ++  + F  +  ATIG DF  K + +D     L IWDTAGQ
Sbjct: 15  TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQ 74

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF++L  ++YRGA   +LVYDV  + TF  L NW  E        +      +L+GNKI
Sbjct: 75  ERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRND---IVNMLVGNKI 131

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHKDIYY 190
           D +   +R V + + L++ A + ++ + E SAK    +  AF  +  +I       +   
Sbjct: 132 DKE---NREVDRNEGLKF-ARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESEN 187

Query: 191 QPQGIS 196
           Q  G S
Sbjct: 188 QNSGPS 193

>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 =  207 bits (528), Expect = 2e-68
 Identities = 64/183 (34%), Positives = 102/183 (55%), Gaps = 14/183 (7%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GD+ VGKT ++ ++    FS++  +TIG DF  K L++  K V LQIWDTAGQ
Sbjct: 29  LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQ 88

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YR A+  +L YD+  + +F S+ +W E+  K A          +L+GNK 
Sbjct: 89  ERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSN----IVQLLIGNKS 144

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D      R V   +A     +   +   ETSAK+  N++EAFL VA         ++  +
Sbjct: 145 DLS--ELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVA--------TELIMR 194

Query: 192 PQG 194
             G
Sbjct: 195 HGG 197

>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 =  206 bits (527), Expect = 3e-68
 Identities = 66/178 (37%), Positives = 108/178 (60%), Gaps = 15/178 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAG 
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL 88

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 89  ERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNKS 144

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIY 189
           D      R VP  +A  + A +  + + ETSA +  N++ AF  +          +IY
Sbjct: 145 DLR--HLRAVPTDEARAF-AEKNGLSFIETSALDSTNVEAAFQTIL--------TEIY 191

>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 =  206 bits (527), Expect = 3e-68
 Identities = 67/172 (38%), Positives = 97/172 (56%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G +G GK+ L++Q++ NKF Q    TIG +F ++ + +  K V LQIWDTAGQ
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ 84

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ SL  W  +    A P        +L GNK 
Sbjct: 85  ERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPN----IVVILCGNKK 140

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D D    R V   +A  + A    + + ETSA    N++EAFL  A   L  
Sbjct: 141 DLD--PEREVTFLEASRF-AQENELMFLETSALTGENVEEAFLKCARTILNK 189

>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 =  207 bits (528), Expect = 3e-68
 Identities = 71/206 (34%), Positives = 115/206 (55%), Gaps = 14/206 (6%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G+SGVGK+ L+ ++  + ++  Y +TIG DF  K +++D K V LQIWDTAGQ
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 67

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRG+   ++VYDV  Q++F  ++ W +E  + A          +L+GNK 
Sbjct: 68  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATST----VLKLLVGNKC 123

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK-------NE 184
           D      RVV    A E+ A    +P+ ETSA +  N+++AFL +A    +       NE
Sbjct: 124 DLK--DKRVVEYDVAKEF-ADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 180

Query: 185 HKDIYYQPQGISETVSEVEQRGGCAC 210
                     ++     +   GGC C
Sbjct: 181 TTQKKEDKGNVNLKGQSLTNTGGCCC 206

>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 =  206 bits (526), Expect = 3e-68
 Identities = 44/188 (23%), Positives = 81/188 (43%), Gaps = 16/188 (8%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQ--QYKATIGADFVTKELQMDDK---LVTLQI 65
           N +K++++G++G GKT+L+ Q +  K S      AT+G D     +Q+ DK    + L +
Sbjct: 1   NRMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNV 60

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDV-NVQKTFESLQNWREEFLKQADPGEHEACPF 124
           WD AG+E F S    F       + VYD+   Q   ++++ W      +A        P 
Sbjct: 61  WDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASS-----SPV 115

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP-----YFETSAKEDCNIDEAFLCVAEI 179
           +L+G  +D      R     K  +    +   P     +F  + +E   + +    +   
Sbjct: 116 ILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINE 175

Query: 180 ALKNEHKD 187
           +L  + +D
Sbjct: 176 SLNFKIRD 183

>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 =  205 bits (525), Expect = 3e-68
 Identities = 62/176 (35%), Positives = 98/176 (55%), Gaps = 7/176 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K+++LGD G GK+SL+ ++V ++F +  ++TIGA F ++ L ++D  V  +IWDTAGQ
Sbjct: 12  NAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQ 71

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER+ SL   +YRGA   ++V+DV  Q +FE  + W +E   Q +P         L GNK 
Sbjct: 72  ERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPN----MVMALAGNKS 127

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           D     +R V  + A  + A    + + ETSAK   N+ E F  +A    + +  +
Sbjct: 128 DLL--DARKVTAEDAQTY-AQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 =  206 bits (526), Expect = 4e-68
 Identities = 66/175 (37%), Positives = 96/175 (54%), Gaps = 8/175 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV +LGD+GVGK+S++ ++V + F      TIGA F+TK +   ++L    IWDTAGQER
Sbjct: 25  KVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQER 84

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F SL   +YRG+   V+VYD+  Q +F +L+ W +E  +             + GNK D 
Sbjct: 85  FHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPEN----IVMAIAGNKCDL 140

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHKD 187
                R VP K A E+ A        ETSAK   NI+E F  ++ +I   + H++
Sbjct: 141 S--DIREVPLKDAKEY-AESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHEN 192

>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 =  205 bits (525), Expect = 4e-68
 Identities = 65/172 (37%), Positives = 104/172 (60%), Gaps = 6/172 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
            L+VI++G  GVGKTSLM ++  + F +  K+T+G DF  K +++  K + LQIWDTAGQ
Sbjct: 26  KLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQ 85

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF S+ SA+YR A   +LVYD+  ++TF+ L  W +   K A          +L+GNK+
Sbjct: 86  ERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASED----AELLLVGNKL 141

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +  + R + +++  ++      + + E SAK++ N+DE FL + +  LK 
Sbjct: 142 DCE--TDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK 191

>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 =  205 bits (523), Expect = 4e-68
 Identities = 65/170 (38%), Positives = 105/170 (61%), Gaps = 7/170 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQER
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER 67

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK D 
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNKADL 123

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
              + R V  ++A  + A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 124 A--NKRAVDFQEAQSY-ADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>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 =  205 bits (524), Expect = 6e-68
 Identities = 59/172 (34%), Positives = 101/172 (58%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + KV+++G+SGVGKT+L++++  N+FS   + TIG +F T+ + +    V  QIWDTAG 
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL 84

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   +LV+D+   +T+  ++ W +E    A+         +L+GNK 
Sbjct: 85  ERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEAT----IVVMLVGNKS 140

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D     +R VP ++A  + A    + + ETSA +  N++ AF  V +     
Sbjct: 141 DLS--QAREVPTEEARMF-AENNGLLFLETSALDSTNVELAFETVLKEIFAK 189

>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 =  205 bits (524), Expect = 6e-68
 Identities = 64/172 (37%), Positives = 97/172 (56%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G++G GK+ L++Q++  KF      TIG +F +K + +  K V LQIWDTAGQ
Sbjct: 10  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 69

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ +L NW  +    A          +L GNK 
Sbjct: 70  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQN----IVIILCGNKK 125

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D D  + R V   +A  + A    + + ETSA    N++EAF+  A   L  
Sbjct: 126 DLD--ADREVTFLEASRF-AQENELMFLETSALTGENVEEAFVQCARKILNK 174

>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 =  205 bits (524), Expect = 8e-68
 Identities = 65/172 (37%), Positives = 109/172 (63%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 33  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 92

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W +E  + A          +L+GNK 
Sbjct: 93  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASEN----VNKLLVGNKC 148

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D    + +VV    A E+ A    IP+ ETSAK   N++++F+ +A    K 
Sbjct: 149 DLT--TKKVVDYTTAKEF-ADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 197

>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 =  205 bits (523), Expect = 1e-67
 Identities = 67/172 (38%), Positives = 108/172 (62%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++ + SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 65  ERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNKS 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D      R VP  +A  + A + N+ + ETSA +  N++EAF  +     + 
Sbjct: 121 DLR--HLRAVPTDEARAF-AEKNNLSFIETSALDSTNVEEAFKNILTEIYRI 169

>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 =  203 bits (519), Expect = 2e-67
 Identities = 63/166 (37%), Positives = 97/166 (58%), Gaps = 7/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV +LGD+GVGK+S+M ++V + F      TIGA F+TK +Q  ++L    IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L   +YRG+   ++VYD+  ++TF +L+NW  E  +   P         + GNK D
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPS----IVVAIAGNKCD 122

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                 R V ++ A ++ A   +  + ETSAK   NI+E F+ ++ 
Sbjct: 123 LT--DVREVMERDAKDY-ADSIHAIFVETSAKNAININELFIEISR 165

>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 =  204 bits (522), Expect = 2e-67
 Identities = 60/171 (35%), Positives = 93/171 (54%), Gaps = 9/171 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K+++ GD+ VGK+S + +   N+F +   AT+G DF  K L +D +   LQ+WDTAGQ
Sbjct: 28  AYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQ 87

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  +++R AD  +L+YDV  +K+F +++ W +     A        P +L+GNK 
Sbjct: 88  ERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHET----VPIMLVGNKA 143

Query: 132 D----TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D          + VP     +  A      + ETSAK+  NI EA L +A 
Sbjct: 144 DIRDTAATEGQKCVPGHFGEKL-AMTYGALFCETSAKDGSNIVEAVLHLAR 193

>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 =  204 bits (521), Expect = 3e-67
 Identities = 62/202 (30%), Positives = 99/202 (49%), Gaps = 10/202 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAG 
Sbjct: 16  KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGL 75

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+SL  ++ R +   V+VYD+    +F+    W ++   +           +L+GNK 
Sbjct: 76  ERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSD----VIIMLVGNKT 131

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D      R V  ++     A   N+ + ETSAK   N+ + F  VA      E      +
Sbjct: 132 DLA--DKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSR 188

Query: 192 PQGISETVS---EVEQRGGCAC 210
              I   +    E     G   
Sbjct: 189 EDMIDIKLEKPQEQPVSEGGCL 210

>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 =  204 bits (521), Expect = 3e-67
 Identities = 65/175 (37%), Positives = 104/175 (59%), Gaps = 7/175 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G++GVGKT L+ ++    F     ATIG DF+ K ++++ + V LQIWDTAGQ
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ 85

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YR A+  +L YD+  +++F  L  W  E  + A          VL+GNKI
Sbjct: 86  ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNK----VITVLVGNKI 141

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           D      R V Q++A E+ +   ++ Y ETSAKE  N+++ FL +A   +    +
Sbjct: 142 DLA--ERREVSQQRAEEF-SEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQ 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 =  203 bits (519), Expect = 4e-67
 Identities = 58/172 (33%), Positives = 101/172 (58%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +   DK + LQIWDTAGQ
Sbjct: 22  MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQ 81

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  Q++F ++Q+W  +    +          +L+GNK 
Sbjct: 82  ERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDN----AQVILVGNKC 137

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +    RVVP +      A      +FE SAKE+ N+ + F  + ++  + 
Sbjct: 138 DLE--DERVVPAEDGRRL-ADDLGFEFFEASAKENINVKQVFERLVDVICEK 186

>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 =  202 bits (517), Expect = 6e-67
 Identities = 62/172 (36%), Positives = 105/172 (61%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGKT ++ ++  + F+  + +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 8   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 67

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYD+  +K+F++++NW     + A          ++LGNK 
Sbjct: 68  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASAD----VEKMILGNKC 123

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +    R V +++  +  A    I + ETSAK + N++ AF  +A      
Sbjct: 124 DVN--DKRQVSKERGEKL-ALDYGIKFMETSAKANINVENAFFTLARDIKAK 172

>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 =  202 bits (516), Expect = 6e-67
 Identities = 59/173 (34%), Positives = 94/173 (54%), Gaps = 7/173 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ V LQ+WDTAGQ
Sbjct: 14  KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ 73

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+SL  ++ R +   V+VYD+    +F     W ++   +           +L+GNK 
Sbjct: 74  ERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSD----VIIMLVGNKT 129

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           D      R V  ++     A   N+ + ETSAK   N+ + F  VA      +
Sbjct: 130 DLS--DKRQVSTEEGER-KAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMD 179

>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 =  201 bits (514), Expect = 1e-66
 Identities = 65/172 (37%), Positives = 109/172 (63%), Gaps = 8/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           ++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQIWDTAGQ
Sbjct: 3   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYD+  ++TF +++ W +   + A+         +L+GNK 
Sbjct: 63  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDE----AQLLLVGNKS 118

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +   +RVV   +     A    IP+ E+SAK D N++E F  +A++  + 
Sbjct: 119 DME---TRVVTADQGEAL-AKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 166

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  202 bits (516), Expect = 1e-66
 Identities = 65/172 (37%), Positives = 109/172 (63%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+ L+ ++  + +++ Y +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 16  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 75

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRGA   ++VYDV  Q++F +++ W +E  + A          +L+GNK 
Sbjct: 76  ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASEN----VNKLLVGNKC 131

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D    + +VV    A E+ A    IP+ ETSAK   N++++F+ +A    K 
Sbjct: 132 DLT--TKKVVDYTTAKEF-ADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 180

>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 =  202 bits (515), Expect = 2e-66
 Identities = 58/172 (33%), Positives = 102/172 (59%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +   +K V LQIWDTAGQ
Sbjct: 23  MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQ 82

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W  +    +          +L+GNK 
Sbjct: 83  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDN----AQVILVGNKC 138

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +    RVVP +K     A +    +FE SAKE+ ++ +AF  + +     
Sbjct: 139 DME--EERVVPTEKGQLL-AEQLGFDFFEASAKENISVRQAFERLVDAICDK 187

>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 =  201 bits (513), Expect = 6e-66
 Identities = 70/200 (35%), Positives = 115/200 (57%), Gaps = 9/200 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           ++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQ+WDTAGQ
Sbjct: 20  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 79

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYDV  ++TF +++ W +   + A+         +L+GNK 
Sbjct: 80  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDE----AQLLLVGNKS 135

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHKDIYY 190
           D +   +RVV   +     A    IP+ E+SAK D N++E F  +A  I  K +   +  
Sbjct: 136 DME---TRVVTADQGEAL-AKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVG 191

Query: 191 QPQGISETVSEVEQRGGCAC 210
              G    +S     G  + 
Sbjct: 192 VGNGKEGNISINSGSGNSSK 211

>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 =  200 bits (511), Expect = 8e-66
 Identities = 54/172 (31%), Positives = 102/172 (59%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +  +DK + LQIWDTAG 
Sbjct: 8   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGL 67

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W  +    +          +L+GNK 
Sbjct: 68  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDN----AQVLLVGNKC 123

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D +    RVV  ++  +  A      +FE SAK++ N+ + F  + ++  + 
Sbjct: 124 DME--DERVVSSERGRQL-ADHLGFEFFEASAKDNINVKQTFERLVDVICEK 172

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  199 bits (509), Expect = 8e-66
 Identities = 68/177 (38%), Positives = 110/177 (62%), Gaps = 8/177 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK+SL+ ++  N FS  Y  TIG DF  + ++++ + V LQIWDTAGQ
Sbjct: 9   LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQ 68

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S +YRG    ++VYDV   ++F +++ W  E  +  D         +L+GNK 
Sbjct: 69  ERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDD-----VCRILVGNKN 123

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDI 188
           D      +VV  + A ++ A +  I  FETSAKE+ N++E F C+ E+ L+ +  ++
Sbjct: 124 DDP--ERKVVETEDAYKF-AGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNL 177

>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 =  201 bits (512), Expect = 9e-66
 Identities = 64/197 (32%), Positives = 110/197 (55%), Gaps = 8/197 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGK++L++++  N+F+   K+TIG +F T+ L+++ K +  QIWDTAGQ
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ 72

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ SA+YRGA   ++VYD++   ++E+  +W  E  + AD          L+GNK 
Sbjct: 73  ERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDN----VAVGLIGNKS 128

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHKDIYY 190
           D      R VP +++  + A    + + ETSA    N+D+AF  +   I  K     +  
Sbjct: 129 DLA--HLRAVPTEESKTF-AQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDL 185

Query: 191 QPQGISETVSEVEQRGG 207
                +   +      G
Sbjct: 186 GDSSANGNANGASAPNG 202

>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 =  201 bits (512), Expect = 9e-66
 Identities = 68/182 (37%), Positives = 107/182 (58%), Gaps = 16/182 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL----------V 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  + +           V
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84

Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAGQERF+SL +AF+R A   +L++D+  Q++F +++NW  +    A     E 
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYC---EN 141

Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      R V +++A E  A +  IPYFETSA    N+++A   + ++ +
Sbjct: 142 PDIVLIGNKADLP--DQREVNERQAREL-ADKYGIPYFETSAATGQNVEKAVETLLDLIM 198

Query: 182 KN 183
           K 
Sbjct: 199 KR 200

>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 =  197 bits (504), Expect = 5e-65
 Identities = 62/176 (35%), Positives = 98/176 (55%), Gaps = 10/176 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K+IV+GDS VGKT L  ++   +F  + +ATIG DF  + + +D + + +Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79

Query: 72  ERF-QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           ERF +S+   +YR     V VYD+    +F SL  W EE  +          P +L+GNK
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLA---NDIPRILVGNK 136

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK---EDCNIDEAFLCVAEIALKN 183
            D    S+  VP   A ++ A   ++P FETSAK   ++ +++  F+ +A     +
Sbjct: 137 CDLR--SAIQVPTDLAQKF-ADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKSH 189

>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 =  197 bits (503), Expect = 6e-65
 Identities = 66/168 (39%), Positives = 100/168 (59%), Gaps = 8/168 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
             KV+++GDSGVGKT L+ ++    F +  + +T+G DF  K L +D   V LQ+WDTAG
Sbjct: 10  AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAG 69

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+S+  A+YR A   +L+YDV  + +F+++Q W  E  + A          +LLGNK
Sbjct: 70  QERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHD----VALMLLGNK 125

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +D+     RVV ++   +  A    +P+ ETSAK   N+D AF  +A+
Sbjct: 126 VDSA--HERVVKREDGEKL-AKEYGLPFMETSAKTGLNVDLAFTAIAK 170

>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 =  196 bits (500), Expect = 3e-64
 Identities = 67/182 (36%), Positives = 102/182 (56%), Gaps = 16/182 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------DKLV 61
           L+K + LGDSGVGKTS++ QY   KF+ ++  T+G DF  K +              + +
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70

Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAG ERF+SL +AF+R A   +L++D+  +++F +++NW  +    A     E 
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYS---EN 127

Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL GNK D +    R V +++A E  A +  IPYFETSA    NI  A   + ++ +
Sbjct: 128 PDIVLCGNKSDLE--DQRAVKEEEAREL-AEKYGIPYFETSAANGTNISHAIEMLLDLIM 184

Query: 182 KN 183
           K 
Sbjct: 185 KR 186

>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 =  188 bits (479), Expect = 5e-61
 Identities = 41/187 (21%), Positives = 78/187 (41%), Gaps = 8/187 (4%)

Query: 2   DISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLV 61
           ++    ++  + KV+++G+SGVGK++L   +   +    ++     D   + + +D + V
Sbjct: 13  NLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEV 72

Query: 62  TLQIWDTAGQERFQS-LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           TL ++D   Q      L     +  D  ++V+ V  +++F  +               H 
Sbjct: 73  TLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRP---HH 129

Query: 121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EI 179
             P +L+GNK D     SR V  ++     A   +  + ETSA    N  E F     +I
Sbjct: 130 DLPVILVGNKSDLA--RSREVSLEEGRH-LAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

Query: 180 ALKNEHK 186
            L+    
Sbjct: 187 RLRRGRN 193

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  185 bits (473), Expect = 2e-60
 Identities = 41/173 (23%), Positives = 74/173 (42%), Gaps = 8/173 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + KV+++G+SGVGK++L   +   +    ++     D   + + +D + VTL ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 72  ERFQS-LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
                 L     +  D  ++V+ V  +++F  +               H   P +L+GNK
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRP---HHDLPVILVGNK 118

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALK 182
            D     SR V  ++     A   +  + ETSA    N  E F     +I L+
Sbjct: 119 SDLA--RSREVSLEEGRH-LAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>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 =  184 bits (469), Expect = 6e-60
 Identities = 61/166 (36%), Positives = 101/166 (60%), Gaps = 6/166 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LG++ VGK+S++ ++V N F++  + TIGA F+T+ + +++  V  +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID- 132
           F SL   +YR A   ++VYDV   ++F   ++W +E  +QA           L+GNKID 
Sbjct: 65  FASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKD----IIIALVGNKIDX 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
              G  R V +++  +  A    + +FETSAK   N+++ FL + E
Sbjct: 121 LQEGGERKVAREEGEKL-AEEKGLLFFETSAKTGENVNDVFLGIGE 165

>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 =  183 bits (467), Expect = 1e-59
 Identities = 53/170 (31%), Positives = 90/170 (52%), Gaps = 8/170 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +   TI   +  K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEE 63

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D    +  P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDS---DDVPMVLVGNKSDL 120

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
               +R V  ++A +  A    IPY ETSAK    +++AF  +     ++
Sbjct: 121 A---ARTVESRQAQDL-ARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  183 bits (468), Expect = 2e-59
 Identities = 58/170 (34%), Positives = 90/170 (52%), Gaps = 9/170 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             K++V+GD GVGK++L  Q+    F   Y  TI  D   K  ++D++   L + DTAGQ
Sbjct: 18  TYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQ 76

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E F ++   + R  D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+
Sbjct: 77  EEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR---ESFPMILVANKV 133

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC-NIDEAFL-CVAEI 179
           D      R V + +  E  A + NIPY ETSAK+   N+D+ F   V  I
Sbjct: 134 DLM--HLRKVTRDQGKEM-ATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  183 bits (467), Expect = 4e-59
 Identities = 55/214 (25%), Positives = 94/214 (43%), Gaps = 47/214 (21%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK------- 59
           M++++  K ++LG+S VGK+S++ +   + F +    TIGA F T  + ++D        
Sbjct: 2   MEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSN 61

Query: 60  ------------------------------LVTLQIWDTAGQERFQSLGSAFYRGADCCV 89
                                          +   IWDTAGQER+ S+   +YRGA C +
Sbjct: 62  NEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAI 121

Query: 90  LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEW 149
           +V+D++   T +  + W  +   +           +L+ NKID +      V   +  ++
Sbjct: 122 VVFDISNSNTLDRAKTWVNQL--KISSN----YIIILVANKIDKN---KFQVDILEVQKY 172

Query: 150 CAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            A   N+ + +TSAK   NI   F  +AE   KN
Sbjct: 173 -AQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN 205

>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 =  182 bits (464), Expect = 5e-59
 Identities = 58/185 (31%), Positives = 95/185 (51%), Gaps = 7/185 (3%)

Query: 4   SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL 63
           S++       K++V+G  GVGK++L  Q++ + F   Y  TI  D  TK   +D     L
Sbjct: 1   SMDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARL 59

Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP 123
            I DTAGQE F ++   + R     +LV+ +N +++F  +     + L+  D    +  P
Sbjct: 60  DILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDR---DDFP 116

Query: 124 FVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            VL+GNK D +  S R VP+ +A  +     ++ YFE SAK   N+DEAF  +     K 
Sbjct: 117 VVLVGNKADLE--SQRQVPRSEASAF-GASHHVAYFEASAKLRLNVDEAFEQLVRAVRKY 173

Query: 184 EHKDI 188
           + +++
Sbjct: 174 QEQEL 178

>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 =  179 bits (458), Expect = 3e-58
 Identities = 55/169 (32%), Positives = 98/169 (57%), Gaps = 8/169 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T    +  K++ +D + V + I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+  +    E  PF+L+GNK 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKS 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EI 179
           D +    R V  ++A    A + N+ Y ETSAK   N+D+ F  +  EI
Sbjct: 120 DLE--DKRQVSVEEAKN-RADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>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 =  180 bits (459), Expect = 5e-58
 Identities = 54/176 (30%), Positives = 99/176 (56%), Gaps = 7/176 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T    +  K++ +D + V + I DTAGQ
Sbjct: 18  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQ 76

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+  +    E  PF+L+GNK 
Sbjct: 77  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKS 133

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKD 187
           D +    R V  ++A    A + N+ Y ETSAK   N+D+ F  +       + +D
Sbjct: 134 DLE--DKRQVSVEEAKN-RAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>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 =  180 bits (459), Expect = 6e-58
 Identities = 56/197 (28%), Positives = 102/197 (51%), Gaps = 7/197 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T    +  K++ +D + V + I DTAGQ
Sbjct: 14  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQ 72

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+  +    E  PF+L+GNK 
Sbjct: 73  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKS 129

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
           D +    R V  ++A    A + N+ Y ETSAK   N+D+ F  +       + +D   +
Sbjct: 130 DLE--DKRQVSVEEAKN-RAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEK 186

Query: 192 PQGISETVSEVEQRGGC 208
                        R  C
Sbjct: 187 NGKKKRKSLAKRIRERC 203

>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 =  178 bits (453), Expect = 2e-57
 Identities = 60/178 (33%), Positives = 95/178 (53%), Gaps = 19/178 (10%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M+     KV+VLG  GVGK++L  Q+V   F ++Y  TI  DF  KE+++D     L+I 
Sbjct: 1   MREY---KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEIL 56

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAG E+F S+   + +     +LVY +  Q++F+ ++  R++ ++       E  P +L
Sbjct: 57  DTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRY---EKVPVIL 113

Query: 127 LGNKIDTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEI 179
           +GNK+D +  S R V     +  A EW       P+ ETSAK    +DE F   V ++
Sbjct: 114 VGNKVDLE--SEREVSSSEGRALAEEW-----GCPFMETSAKSKTMVDELFAEIVRQM 164

>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 =  178 bits (454), Expect = 2e-57
 Identities = 60/197 (30%), Positives = 102/197 (51%), Gaps = 16/197 (8%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI   +  K++ +D +   L I DTAGQE 
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEE 64

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE + ++RE+  +  D    E  P VL+GNK D 
Sbjct: 65  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKCDL 121

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQPQ 193
               SR V  K+A +  A    IP+ ETSAK    +D+AF  +         ++I    +
Sbjct: 122 P---SRTVDTKQAQDL-ARSYGIPFIETSAKTRQGVDDAFYTLV--------REIRKHKE 169

Query: 194 GISETVSEVEQRGGCAC 210
            +S+   + +++    C
Sbjct: 170 KMSKDGKKKKKKSKTKC 186

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  178 bits (455), Expect = 3e-57
 Identities = 52/185 (28%), Positives = 84/185 (45%), Gaps = 15/185 (8%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
            M      KV++LG   VGKTSL +Q+V  +FS+ Y  T+   + +K + +      L +
Sbjct: 18  GMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHL 76

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            DTAGQ+ +  L  +F  G    VLVY V    +F+ +++  ++  +          P V
Sbjct: 77  VDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGK---TRVPVV 133

Query: 126 LLGNKIDTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           L+GNK D      R V     +K A  W        + E+SA+E+      F  V +   
Sbjct: 134 LVGNKADLS--PEREVQAVEGKKLAESW-----GATFMESSARENQLTQGIFTKVIQEIA 186

Query: 182 KNEHK 186
           + E+ 
Sbjct: 187 RVENS 191

>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 =  177 bits (451), Expect = 4e-57
 Identities = 49/175 (28%), Positives = 82/175 (46%), Gaps = 14/175 (8%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           +V V G  GVGK+SL+ ++V   F + Y  T+   +  + +  D  + TLQI DT G  +
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQ 63

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++           +LVY +  +++ E L+   E+  +    G+ E+ P +L+GNK D 
Sbjct: 64  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIK--GDVESIPIMLVGNKCDE 121

Query: 134 DGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
               SR V     +  A  W        + ETSAK + N+ E F  +  +  +  
Sbjct: 122 S--PSREVQSSEAEALARTW-----KCAFMETSAKLNHNVKELFQELLNLEKRRT 169

>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 =  178 bits (453), Expect = 5e-57
 Identities = 54/205 (26%), Positives = 91/205 (44%), Gaps = 11/205 (5%)

Query: 6   NM-KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQ 64
           +M ++ N  +V+V G  GVGK+SL+ ++V   F   Y  TI   +  + +  D  + TLQ
Sbjct: 1   SMPEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQ 59

Query: 65  IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF 124
           I DT G  +F ++           +LV+ V  +++ E L    +  ++     E    P 
Sbjct: 60  ITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVED--IPV 117

Query: 125 VLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKN 183
           +L+GNK D      R V  ++A    A      + ETSAK + N+ E F   +     +N
Sbjct: 118 MLVGNKCDET---QREVDTREAQA-VAQEWKCAFMETSAKMNYNVKELFQELLTLETRRN 173

Query: 184 EHKDIYYQPQGISETVSEVEQRGGC 208
              +I  +  G  +       +G C
Sbjct: 174 MSLNIDGKRSGKQKRTD--RVKGKC 196

>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 =  176 bits (450), Expect = 9e-57
 Identities = 51/178 (28%), Positives = 80/178 (44%), Gaps = 16/178 (8%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M +    K+ +LG   VGK+SL  Q+V  +F   Y  TI   F TK + ++ +   LQ+ 
Sbjct: 1   MPQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLV 59

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAGQ+ +      +    +  +LVY V   K+FE ++    + L           P +L
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK---VQIPIML 116

Query: 127 LGNKIDTDGGSSRVVP----QKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEI 179
           +GNK D      RV+     +  A  W     N  + E+SAKE+    + F   + E 
Sbjct: 117 VGNKKDLH--MERVISYEEGKALAESW-----NAAFLESSAKENQTAVDVFRRIILEA 167

>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 =  175 bits (447), Expect = 1e-56
 Identities = 58/174 (33%), Positives = 93/174 (53%), Gaps = 10/174 (5%)

Query: 7   MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIW 66
           M+     K++VLG  GVGK++L  Q+V   F ++Y  TI   +  K++++D +   L+I 
Sbjct: 1   MREY---KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEIL 56

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           DTAG E+F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D    E  P +L
Sbjct: 57  DTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT---EDVPMIL 113

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF-LCVAEI 179
           +GNK D +    RVV +++         N  + E+SAK   N++E F   V +I
Sbjct: 114 VGNKCDLE--DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>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 =  173 bits (442), Expect = 2e-55
 Identities = 58/174 (33%), Positives = 91/174 (52%), Gaps = 9/174 (5%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI   +  K++ +D +   L I DTAGQE 
Sbjct: 23  KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEE 81

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+F  +  +RE+  +  D    +  P VL+GNK D 
Sbjct: 82  YSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDS---DDVPMVLVGNKCDL 138

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL-CVAEIALKNEHK 186
               +R V  K+A E  A    IP+ ETSAK    +++AF   V EI      K
Sbjct: 139 P---TRTVDTKQAHEL-AKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKK 188

>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 =  170 bits (433), Expect = 2e-54
 Identities = 43/173 (24%), Positives = 74/173 (42%), Gaps = 9/173 (5%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           ++ KV++LG  GVGK++L   +             G  +  + + +D +  +L ++D   
Sbjct: 1   SVYKVLLLGAPGVGKSALARIFG-GVEDGPEAEAAGHTY-DRSIVVDGEEASLMVYDIWE 58

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           Q+  + L        D  V+VY V  + +FE     R +  +       +  P +L+GNK
Sbjct: 59  QDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ---TDDVPIILVGNK 115

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALK 182
            D     SR V   +    CA   +  + ETSA    N+   F  V  +I L+
Sbjct: 116 SDLV--RSREVSVDEGRA-CAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 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 =  170 bits (432), Expect = 3e-54
 Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 10/176 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L +V++LGD GVGKTSL + +   +    +   +G D   + L +D +  TL + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEA 62

Query: 72  ERFQSLGS--AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN 129
           E+     S  +  +G    V+VY +  + +FES    R +  +       +  P +L+GN
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQ---ADHVPIILVGN 119

Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNE 184
           K D      R V  ++    CA   +  + ETSA    N+ E F  V  ++ L+  
Sbjct: 120 KADLA--RCREVSVEEGRA-CAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRR 172

>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 =  168 bits (427), Expect = 3e-53
 Identities = 48/179 (26%), Positives = 88/179 (49%), Gaps = 10/179 (5%)

Query: 3   ISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVT 62
              +M +   +K+ + G +GVGK++L+ +++  +F  +Y  T+ + +   +  +DD++V+
Sbjct: 19  YFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVS 77

Query: 63  LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC 122
           ++I DTAGQE          R  +  VLVYD+  + +FE +   +    +   P   +  
Sbjct: 78  MEILDTAGQEDTIQR-EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKP---KNV 133

Query: 123 PFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED-CNIDEAFL-CVAEI 179
             +L+GNK D D   SR V  ++  +  A      ++E SA     NI E F     E+
Sbjct: 134 TLILVGNKADLD--HSRQVSTEEGEK-LATELACAFYECSACTGEGNITEIFYELCREV 189

>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 =  164 bits (418), Expect = 5e-52
 Identities = 42/168 (25%), Positives = 80/168 (47%), Gaps = 8/168 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
            + +LG  G GK++L  +++  +F  +Y   +   + + E  +D + V L++ DTA  + 
Sbjct: 23  NLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDT 81

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            ++    +   A   ++VY V+ +++F+S  ++ E  L         + P +LLGNK+D 
Sbjct: 82  PRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLEL-LALHAKETQRSIPALLLGNKLDM 139

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC-NIDEAFL-CVAEI 179
                R V + + +   A R    +FE SA  D  ++   F   V E 
Sbjct: 140 A--QYRQVTKAEGVAL-AGRFGCLFFEVSACLDFEHVQHVFHEAVREA 184

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  171 bits (435), Expect = 5e-51
 Identities = 42/193 (21%), Positives = 68/193 (35%), Gaps = 19/193 (9%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM---- 56
                 +     +KV ++GD   GKTSL+ Q +   F  +   T G + VTK+       
Sbjct: 30  RSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGL 89

Query: 57  ----DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLK 112
               + K      WD  GQE   +    F   +   +L+ D    +T  +   W     K
Sbjct: 90  ENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDS---RTDSNKHYWLRHIEK 146

Query: 113 QADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA 172
                     P +++ NKID +   S  + QKK  E      N  +   S K    ++  
Sbjct: 147 YGGK-----SPVIVVMNKIDEN--PSYNIEQKKINERFPAIEN-RFHRISCKNGDGVESI 198

Query: 173 FLCVAEIALKNEH 185
              +    L  + 
Sbjct: 199 AKSLKSAVLHPDS 211

>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 =  162 bits (412), Expect = 1e-50
 Identities = 43/181 (23%), Positives = 81/181 (44%), Gaps = 13/181 (7%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA-TIGADFVTKELQMDDK---LVTLQIWD 67
             +V+++G+ GVGK++L N +     S       +G D   + L +D +   ++ L +W+
Sbjct: 37  YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWE 96

Query: 68  TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLL 127
             G+  +  L     +  D  ++VY +  + +FE     R +  +       E  P +L+
Sbjct: 97  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ---TEDIPIILV 151

Query: 128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHK 186
           GNK D      R V   +    CA   +  + ETSA    N+ E F  +  ++ L+ + K
Sbjct: 152 GNKSDLV--RCREVSVSEGRA-CAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 208

Query: 187 D 187
           +
Sbjct: 209 E 209

>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 =  159 bits (404), Expect = 8e-50
 Identities = 42/182 (23%), Positives = 80/182 (43%), Gaps = 13/182 (7%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYK-ATIGADFVTKELQMDDK---LVTLQIW 66
              +V+++G+ GVGK++L N +     S       +G D   + L +D +   ++ L +W
Sbjct: 5   TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
           +  G+  +  L     +  D  ++VY +  + +FE     R +  +       E  P +L
Sbjct: 65  ENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ---TEDIPIIL 119

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEH 185
           +GNK D      R V   +     A   +  + ETSA    N+ E F  +  ++ L+ + 
Sbjct: 120 VGNKSDLV--RXREVSVSEGRA-XAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDS 176

Query: 186 KD 187
           K+
Sbjct: 177 KE 178

>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 =  139 bits (353), Expect = 5e-42
 Identities = 46/172 (26%), Positives = 80/172 (46%), Gaps = 7/172 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK++V+GD  VGKT L+  +   +    Y  T+  +F    ++  ++   L +WDTAGQE
Sbjct: 24  LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHV-MKYKNEEFILHLWDTAGQE 82

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y  +D  +L + VN + +F+++   W  E +K            VL+G K+
Sbjct: 83  EYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPE-IKHYIDT----AKTVLVGLKV 137

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D     S  V +++  + C   G + Y E S+     ++E F    +    N
Sbjct: 138 DLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN 189

>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 =  129 bits (327), Expect = 3e-38
 Identities = 54/186 (29%), Positives = 83/186 (44%), Gaps = 15/186 (8%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M     +K + +GD  VGKT L+  Y  N F   Y  T+  +F    + ++   V L +
Sbjct: 2   SMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSA-NVVVNGATVNLGL 60

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPF 124
           WDTAGQE +  L    YRGAD  +L + +  + ++E++   W  E LK   PG     P 
Sbjct: 61  WDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPE-LKHYAPG----VPI 115

Query: 125 VLLGNKID--------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCV 176
           VL+G K+D         D   +  +   +  E     G   Y E S+K   N+   F   
Sbjct: 116 VLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAA 175

Query: 177 AEIALK 182
             + L+
Sbjct: 176 IRVVLQ 181

>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 =  130 bits (329), Expect = 3e-38
 Identities = 54/188 (28%), Positives = 88/188 (46%), Gaps = 13/188 (6%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M     +K + +GD  VGKT ++  Y  NKF   Y  T+  +F    + +D ++V L +
Sbjct: 3   HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVAVDGQIVNLGL 61

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPF 124
           WDTAGQE +  L    YRGAD  VL + +  + ++E++   W  E L++  P      P 
Sbjct: 62  WDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPE-LRRFAPN----VPI 116

Query: 125 VLLGNKID------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           VL+G K+D           + V+   +  E     G   Y E S+K   N+   F    +
Sbjct: 117 VLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIK 176

Query: 179 IALKNEHK 186
           + L+   +
Sbjct: 177 VVLQPPRR 184

>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 =  130 bits (328), Expect = 3e-38
 Identities = 54/198 (27%), Positives = 85/198 (42%), Gaps = 17/198 (8%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
           M           +KV+++GD G GKTSL+  +    F + Y  T+   ++   LQ+  K 
Sbjct: 23  MAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKP 81

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEH 119
           V L IWDTAGQ+ +  L   FY  A   +L +DV    +F+++ N W  E +        
Sbjct: 82  VHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPE-VNHFCKK-- 138

Query: 120 EACPFVLLGNKID----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI 169
              P +++G K D                  V   +  E     G + Y E SA+   N+
Sbjct: 139 --VPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNV 196

Query: 170 DEAFLCVAEIALKNEHKD 187
              F   AE+AL +  ++
Sbjct: 197 HAVFQEAAEVALSSRGRN 214

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  126 bits (317), Expect = 1e-36
 Identities = 48/192 (25%), Positives = 78/192 (40%), Gaps = 17/192 (8%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
                  +K +++GD  VGKTSL+  Y  N +  +Y  T   +F    + +D + V LQ+
Sbjct: 14  GGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSA-VVSVDGRPVRLQL 72

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPF 124
            DTAGQ+ F  L    Y   D  +L + V    +F++  + W  E ++   P      P 
Sbjct: 73  CDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPE-IRCHCPK----API 127

Query: 125 VLLGNKID----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFL 174
           +L+G + D           D    + VP++ A           Y E SA    N+ E F 
Sbjct: 128 ILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFD 187

Query: 175 CVAEIALKNEHK 186
                 ++    
Sbjct: 188 AAIVAGIQYSDT 199

>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 =  124 bits (312), Expect = 7e-36
 Identities = 44/181 (24%), Positives = 77/181 (42%), Gaps = 17/181 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD   GKT L+  +  ++F + Y  T+  +++    ++D K V L +WDTAGQE
Sbjct: 26  KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADI-EVDGKQVELALWDTAGQE 84

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + ++   + E++   W  E +K   P      P +L+GNK 
Sbjct: 85  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE-VKHFCPN----VPIILVGNKK 139

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D                  V  ++  +         Y E SAK    + E F       L
Sbjct: 140 DLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL 199

Query: 182 K 182
           +
Sbjct: 200 Q 200

>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 =  123 bits (310), Expect = 2e-35
 Identities = 47/192 (24%), Positives = 77/192 (40%), Gaps = 17/192 (8%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
             +     +   +K +V+GD  VGKT L+  Y  N F  +Y  T+  D  +  + +D K 
Sbjct: 19  SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKP 77

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEH 119
           V L +WDTAGQE +  L    Y   D  ++ + +    +FE+++  W  E ++   P   
Sbjct: 78  VNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPN-- 134

Query: 120 EACPFVLLGNKID----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI 169
              P +L+G K+D                  +   + L      G + Y E SA     +
Sbjct: 135 --TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL 192

Query: 170 DEAFLCVAEIAL 181
              F       L
Sbjct: 193 KTVFDEAIRAVL 204

>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 =  121 bits (306), Expect = 7e-35
 Identities = 47/185 (25%), Positives = 77/185 (41%), Gaps = 17/185 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+GD   GKT L+  +  ++F + Y  T+  ++V  ++++D K V L +WDTAGQE
Sbjct: 26  KKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQE 84

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V+   + E++   W  E +K   P      P +L+ NK 
Sbjct: 85  DYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPE-VKHFCPN----VPIILVANKK 139

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D                  V                Y E SAK    + E F      AL
Sbjct: 140 DLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAAL 199

Query: 182 KNEHK 186
           +  + 
Sbjct: 200 QKRYG 204

>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 =  118 bits (297), Expect = 1e-33
 Identities = 46/181 (25%), Positives = 76/181 (41%), Gaps = 17/181 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK +V+GD  VGKT L+  Y  + F ++Y  T+  D     + +  K   L ++DTAGQE
Sbjct: 19  LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 77

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + V    +F++  + W  E LK+  P      PF+L+G +I
Sbjct: 78  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPE-LKEYAPN----VPFLLIGTQI 132

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D           +    + +  ++  +     G   Y E SA     +   F       L
Sbjct: 133 DLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 192

Query: 182 K 182
            
Sbjct: 193 T 193

>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 =  116 bits (293), Expect = 3e-33
 Identities = 47/185 (25%), Positives = 75/185 (40%), Gaps = 17/185 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  D  +  + +D K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            +  L    Y   D  ++ + +    +FE+++  W  E ++   P      P +L+G K+
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPE-VRHHCPN----TPIILVGTKL 119

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D                  +   + L      G + Y E SA     +   F       L
Sbjct: 120 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

Query: 182 KNEHK 186
                
Sbjct: 180 CPPPV 184

>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 =  115 bits (291), Expect = 7e-33
 Identities = 37/182 (20%), Positives = 79/182 (43%), Gaps = 18/182 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+GDS  GKT+L++ +  + F + Y  T+  ++     ++D + + L +WDT+G  
Sbjct: 8   CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSP 66

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            + ++    Y  +D  ++ +D++  +T +S+   W+ E +++  P        +L+G K 
Sbjct: 67  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGE-IQEFCPN----TKMLLVGCKS 121

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED-CNIDEAFLCVAEIA 180
           D                  V   +        G   Y E SA +   ++ + F       
Sbjct: 122 DLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 181

Query: 181 LK 182
           + 
Sbjct: 182 VN 183

>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 =  116 bits (292), Expect = 8e-33
 Identities = 38/182 (20%), Positives = 79/182 (43%), Gaps = 18/182 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+GDS  GKT+L++ +  + F + Y  T+  ++     ++D + + L +WDT+G  
Sbjct: 29  CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSP 87

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            + ++    Y  +D  ++ +D++  +T +S+   W+ E +++  P        +L+G K 
Sbjct: 88  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGE-IQEFCPN----TKMLLVGCKS 142

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN-IDEAFLCVAEIA 180
           D                  V   +        G   Y E SA +  N + + F       
Sbjct: 143 DLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 202

Query: 181 LK 182
           + 
Sbjct: 203 VN 204

>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 =  113 bits (284), Expect = 1e-31
 Identities = 37/186 (19%), Positives = 76/186 (40%), Gaps = 18/186 (9%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD   GKT+++     + + + Y  T+  ++    L+ +++ V L +WDT+G  
Sbjct: 28  CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-CLETEEQRVELSLWDTSGSP 86

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEACPFVLLGNKI 131
            + ++    Y  +D  +L +D++  +T +S    WR E +    P        +L+G K 
Sbjct: 87  YYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTE-ILDYCPS----TRVLLIGCKT 141

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAK-EDCNIDEAFLCVAEIA 180
           D                  +  ++        G   Y E SA   + +I   F   + + 
Sbjct: 142 DLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLC 201

Query: 181 LKNEHK 186
           L     
Sbjct: 202 LNKPSP 207

>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 =  103 bits (259), Expect = 6e-28
 Identities = 36/199 (18%), Positives = 66/199 (33%), Gaps = 18/199 (9%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA-----------TIGADF 49
           M       R    K++  G    GKT+ + +++Y+K  +  K            T+  DF
Sbjct: 3   MSTINFANREINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDF 61

Query: 50  VTKEL-QMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWRE 108
           +  ++ ++        ++   GQ  + +      RG D  V V D    +   + ++ R 
Sbjct: 62  LPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRN 121

Query: 109 -EFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC 167
                       +  P V+  NK D        +P +         G  P  E  A E  
Sbjct: 122 MRENLAEYGLTLDDVPIVIQVNKRDLPD----ALPVEMVRAVVDPEGKFPVLEAVATEGK 177

Query: 168 NIDEAFLCVAEIALKNEHK 186
            + E    V+ + L     
Sbjct: 178 GVFETLKEVSRLVLARVAG 196

>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 =  103 bits (259), Expect = 2e-27
 Identities = 38/228 (16%), Positives = 72/228 (31%), Gaps = 71/228 (31%)

Query: 19  GDSGVGKTSLMNQYV---YNKFSQQYKATIG-ADFVTKELQMDDKL-------------- 60
           G  G+GK+ L N++V    ++F   + + +  +DF  + +  D  L              
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 61  VTLQIW-------DTAGQERFQSLGSAFYRGA---------------------------- 85
             + I        D   Q    +    + + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 86  ---------DCCVLVYDV--NVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD 134
                    D  +L  DV   + + F+    +      Q         P V++  K D  
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAK---TKKPIVVVLTKCDEG 211

Query: 135 GGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
               R +  + A  +   + N+   ETSA+ + N+D AF  + ++  K
Sbjct: 212 --VERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLIDK 255

>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 = 83.5 bits (206), Expect = 2e-19
 Identities = 45/190 (23%), Positives = 77/190 (40%), Gaps = 17/190 (8%)

Query: 4   SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTL 63
           +++   + L+K +V+GD  VGKT L+  Y  N F  +Y  T+  ++    + +D K V L
Sbjct: 147 NIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSAN-VMVDGKPVNL 205

Query: 64  QIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQN-WREEFLKQADPGEHEAC 122
            +WDTAG E +  L    Y   D  ++ + +    +F  ++  W  E ++   P      
Sbjct: 206 GLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPE-VRHHCPN----T 260

Query: 123 PFVLLGNKID----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA 172
           P +L+G K+D                  +   + L      G + Y E SA     +   
Sbjct: 261 PIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTV 320

Query: 173 FLCVAEIALK 182
           F       L 
Sbjct: 321 FDEAIRAVLC 330

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 75.4 bits (185), Expect = 1e-16
 Identities = 35/175 (20%), Positives = 73/175 (41%), Gaps = 22/175 (12%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGA--DFVTKELQMDDKLVTLQIWDTAGQ 71
           K++++G SG GK+S M   +++ +S      +GA  D     L+     +TL +WD  GQ
Sbjct: 5   KLLLMGRSGSGKSS-MRSIIFSNYSAFDTRRLGATIDVEHSHLRF-LGNMTLNLWDCGGQ 62

Query: 72  ERF-----QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWRE--EFLKQADPGEHEACPF 124
           + F            ++     + V+DV   +  + ++ + +  + L++  P        
Sbjct: 63  DVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPD----AKI 118

Query: 125 VLLGNKIDTDGGSSRVVPQKKALE------WCAYRGNIPYFETSAKEDCNIDEAF 173
            +L +K+D      R    +  ++            N+  F TS   D ++ +A+
Sbjct: 119 FVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIW-DESLYKAW 172

>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 = 69.6 bits (170), Expect = 4e-15
 Identities = 37/177 (20%), Positives = 70/177 (39%), Gaps = 27/177 (15%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFS----QQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           +++++G    GK+S+    V++K S       ++T     + K+   +   V  QIWD  
Sbjct: 22  RILLMGLRRSGKSSIQKV-VFHKMSPNETLFLESTNK---IYKDDISNSSFVNFQIWDFP 77

Query: 70  GQERFQSLGS---AFYRGADCCVLVYDVN--VQKTFESLQNWREEFLKQADPGEHEACPF 124
           GQ  F          +RG    + V D      +    L     +   + +P       F
Sbjct: 78  GQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSK-AYKVNPD----MNF 132

Query: 125 VLLGNKIDTDGGSSRVVPQK----KALEWCAYRG----NIPYFETSAKEDCNIDEAF 173
            +  +K+D      ++  Q+    +A +  A  G    ++ ++ TS   D +I EAF
Sbjct: 133 EVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIY-DHSIFEAF 188

>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 = 61.4 bits (150), Expect = 2e-12
 Identities = 31/162 (19%), Positives = 67/162 (41%), Gaps = 10/162 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G    GKT+++ +    +       TIG  F  + ++  +  ++  +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTTI-PTIG--FNVETVEYKN--ISFTVWDVGGQD 55

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +++     + V D N +   E +   REE ++     E      ++  NK D
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDR---ERVNEAREELMRMLAEDELRDAVLLVFANKQD 112

Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                ++  +  K  L    +R N     T A     + E  
Sbjct: 113 LPNAMNAAEITDKLGLHSLRHR-NWYIQATCATSGDGLYEGL 153

>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 = 61.0 bits (149), Expect = 5e-12
 Identities = 33/123 (26%), Positives = 62/123 (50%), Gaps = 7/123 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++ ++G    GKT+ +N     +F++    T+G  F  +++   +  VT+++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN--VTIKLWDIGGQP 78

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+   + RG    V + D   Q   E ++  + E     D  + +  P ++LGNK D
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQ---EKIEASKNELHNLLDKPQLQGIPVLVLGNKRD 135

Query: 133 TDG 135
             G
Sbjct: 136 LPG 138

>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 = 60.0 bits (146), Expect = 1e-11
 Identities = 29/162 (17%), Positives = 63/162 (38%), Gaps = 10/162 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G    GKT+++ +    +       TIG  F  + ++  +  +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTTI-PTIG--FNVETVEYKN--ICFTVWDVGGQD 84

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +++     + V D N +   E +Q   +E  K     E      ++  NK D
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDR---ERVQESADELQKMLQEDELRDAVLLVFANKQD 141

Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                    +  K  L+    R       T A +   + +  
Sbjct: 142 MPNAMPVSELTDKLGLQHLRSR-TWYVQATCATQGTGLYDGL 182

>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 = 59.6 bits (145), Expect = 2e-11
 Identities = 30/120 (25%), Positives = 54/120 (45%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            KVI++G    GKT+++ Q+  N+       TIG     +E+ +++      +WD  GQE
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG--SNVEEIVINN--TRFLMWDIGGQE 71

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 72  SLRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 128

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 61.2 bits (148), Expect = 2e-11
 Identities = 31/174 (17%), Positives = 65/174 (37%), Gaps = 25/174 (14%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK--LVTLQIWDTAGQE 72
           V+++G    GK+S + + V++         + +   T    ++    L+ L + +  GQ 
Sbjct: 2   VLLMGVRRCGKSS-ICKVVFHNMQPLDTLYLES---TSNPSLEHFSTLIDLAVMELPGQL 57

Query: 73  RFQSL---GSAFYRGADCCVLVYDVNVQKTFESLQNWRE--EFLKQADPGEHEACPFVLL 127
            +          ++     V V D    +   ++ N     E+  + +P         +L
Sbjct: 58  NYFEPSYDSERLFKSVGALVYVIDSQ-DEYINAITNLAMIIEYAYKVNPS----INIEVL 112

Query: 128 GNKIDTDGGSSRVVPQ--------KKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            +K+D      +V  Q        ++ LE       + ++ TS   D +I EAF
Sbjct: 113 IHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIF-DHSIYEAF 165

>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 = 59.2 bits (144), Expect = 3e-11
 Identities = 30/120 (25%), Positives = 54/120 (45%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            KVI++G    GKT+++ Q+  N+       TIG     +E+ +++      +WD  GQE
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG--SNVEEIVINN--TRFLMWDIGGQE 76

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +S  + +Y   +  ++V D   +   E +   REE  K     +      ++  NK D
Sbjct: 77  SLRSSWNTYYTNTEFVIVVVDSTDR---ERISVTREELYKMLAHEDLRKAGLLIFANKQD 133

>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 = 58.8 bits (143), Expect = 4e-11
 Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L++++LG  G GKT+++ +    +     K TIG  F  + L   +  + L +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIG--FNVETLSYKN--LKLNVWDLGGQT 73

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +     +Y      + V D   +   + +    +E        E +    ++  NK D
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDK---DRMSTASKELHLMLQEEELQDAALLVFANKQD 130

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 56.5 bits (137), Expect = 3e-10
 Identities = 30/162 (18%), Positives = 61/162 (37%), Gaps = 10/162 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++V++LG    GKTS++ +            T+G     + LQ   K ++ ++WD  GQ 
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTVG--VNLETLQY--KNISFEVWDLGGQT 77

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +     ++   D  + V D   +   + +   + E     D  E      ++  NK D
Sbjct: 78  GVRPYWRCYFSDTDAVIYVVDSTDR---DRMGVAKHELYALLDEDELRKSLLLIFANKQD 134

Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
                S   + ++  +     R      ++S+K    + E  
Sbjct: 135 LPDAASEAEIAEQLGVSSIMNR-TWTIVKSSSKTGDGLVEGM 175

>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 = 55.6 bits (135), Expect = 3e-10
 Identities = 35/162 (21%), Positives = 65/162 (40%), Gaps = 10/162 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG  G GKT+++ +    +       TIG  F  + +    K +  Q+WD  G  
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLT 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +     +Y   D  + V D   +   + +   + E +   +  E      V+  NK D
Sbjct: 63  SIRPYWRCYYSNTDAVIYVVDSCDR---DRIGISKSELVAMLEEEELRKAILVVFANKQD 119

Query: 133 TDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAF 173
            +   +S  +     L     R     F+TSA +   +DEA 
Sbjct: 120 MEQAMTSSEMANSLGLPALKDR-KWQIFKTSATKGTGLDEAM 160

>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 = 56.1 bits (136), Expect = 4e-10
 Identities = 26/120 (21%), Positives = 49/120 (40%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L++++LG    GKT+++ ++           T+G  F  K L+       L IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTI-SPTLG--FNIKTLEHRG--FKLNIWDVGGQK 73

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +S    ++   D  + V D   +   + +Q+ + E               ++  NK D
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADR---QRMQDCQRELQSLLVEERLAGATLLIFANKQD 130

>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 = 54.6 bits (132), Expect = 1e-09
 Identities = 27/120 (22%), Positives = 50/120 (41%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG    GKT+L++    ++  Q +  T+     ++EL +    +T   +D  G  
Sbjct: 26  GKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLH--PTSEELTI--AGMTFTTFDLGGHI 80

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + +   +    +  V + D       E L   +EE             P ++LGNKID
Sbjct: 81  QARRVWKNYLPAINGIVFLVDCADH---ERLLESKEELDSLMTDETIANVPILILGNKID 137

>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 = 53.0 bits (128), Expect = 4e-09
 Identities = 27/123 (21%), Positives = 55/123 (44%), Gaps = 10/123 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA-TIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + V+ LG    GKT+++N+   +    Q    TIG  F  ++ +     ++  ++D +GQ
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQ 77

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLK--QADPGEHEACPFVLLGN 129
            R+++L   +Y+     + V D + +     +   +EE          +H   P +   N
Sbjct: 78  GRYRNLWEHYYKEGQAIIFVIDSSDR---LRMVVAKEELDTLLNHPDIKHRRIPILFFAN 134

Query: 130 KID 132
           K+D
Sbjct: 135 KMD 137

>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 = 52.6 bits (127), Expect = 5e-09
 Identities = 26/120 (21%), Positives = 50/120 (41%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+L+ Q      S     T G  F  K +Q       L +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKSVQSQG--FKLNVWDIGGQR 71

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + +    +++   D  + V D   +   +  +   +E  +  +  +    P ++  NK D
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADR---KRFEETGQELTELLEEEKLSCVPVLIFANKQD 128

>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 = 53.2 bits (128), Expect = 6e-09
 Identities = 24/131 (18%), Positives = 47/131 (35%), Gaps = 10/131 (7%)

Query: 7   MKRRNL-LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           M R++    V+ +G    GKT L  + +  ++      +I       ++  +++  +L +
Sbjct: 1   MARKSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVN-NNRGNSLTL 58

Query: 66  WDTAGQERF-QSLGSAFYRGADCCVLVYD-VNVQKTFESLQNWREEFLK--QADPGEHEA 121
            D  G E     L   F   A   V V D    Q+  + +    E   +          +
Sbjct: 59  IDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDV---AEFLYQVLIDSMALKNS 115

Query: 122 CPFVLLGNKID 132
              ++  NK D
Sbjct: 116 PSLLIACNKQD 126

>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 = 51.0 bits (123), Expect = 2e-08
 Identities = 28/120 (23%), Positives = 51/120 (42%), Gaps = 8/120 (6%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG    GKT+L++    ++ +   + T      ++EL +    +    +D  G  
Sbjct: 24  GKLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWH--PTSEELAI--GNIKFTTFDLGGHI 78

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   ++   +  V + D       E     R E     +  E +  PFV+LGNKID
Sbjct: 79  QARRLWKDYFPEVNGIVFLVDAADP---ERFDEARVELDALFNIAELKDVPFVILGNKID 135

>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 = 50.5 bits (121), Expect = 4e-08
 Identities = 18/124 (14%), Positives = 39/124 (31%), Gaps = 11/124 (8%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
            +I+ G    GKTSL+     +        +     ++     D     + + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSVRPTV-VSQE--PLSAA---DYDGSGVTLVDFPGHVK 103

Query: 74  FQSLGSAFYRGA--DCCVLVYDVNVQKTFESLQNWREEF---LKQADPGEHEACPFVLLG 128
            +   S + +        L++ V+     + L    E     L   +         ++  
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 129 NKID 132
           NK +
Sbjct: 164 NKSE 167

>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 = 49.8 bits (119), Expect = 8e-08
 Identities = 20/135 (14%), Positives = 45/135 (33%), Gaps = 12/135 (8%)

Query: 4   SVNMKRRN-LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVT 62
            + +K+++    +I+ G    GKTSL+     +        T+ +         D     
Sbjct: 3   HMGIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAADYDGS--G 56

Query: 63  LQIWDTAGQERFQSLGSAFYRGA--DCCVLVYDVNVQKTFESLQNWREEF---LKQADPG 117
           + + D  G  + +   S + +        L++ V+     + L    E     L   +  
Sbjct: 57  VTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESS 116

Query: 118 EHEACPFVLLGNKID 132
                  ++  NK +
Sbjct: 117 CENGIDILIACNKSE 131

>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* Length = 476

 Score = 44.8 bits (107), Expect = 6e-06
 Identities = 36/192 (18%), Positives = 61/192 (31%), Gaps = 57/192 (29%)

Query: 8   KRRNLLK-----VIVLGDSG---VGKTSLMNQYVYNKFSQQYKATI-----GA--DFVTK 52
           +   ++      VI     G    GK++L+N         Q +A I     G   D++ +
Sbjct: 225 QHGRIVSEGVSTVIA----GKPNAGKSTLLNT-----LLGQERA-IVSHMPGTTRDYIEE 274

Query: 53  ELQMDDKLVTLQIWDTAGQ------------ER-FQSLGSAFYRGADCCVLVYDVNVQKT 99
               D      ++ DTAG              R    +  A     D  + + D+  ++ 
Sbjct: 275 CFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEA-----DLILYLLDLGTERL 327

Query: 100 FESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF 159
            + L   RE  LK A P       F+ + NK+D    +  ++                  
Sbjct: 328 DDELTEIRE--LKAAHPAA----KFLTVANKLDRAANADALIRAIADGT------GTEVI 375

Query: 160 ETSAKEDCNIDE 171
             SA     ID 
Sbjct: 376 GISALNGDGIDT 387

>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 = 1e-05
 Identities = 28/135 (20%), Positives = 41/135 (30%), Gaps = 42/135 (31%)

Query: 9   RRNLLK------VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVT 62
           R+ LL+      V++ G  G GKT +    V   +  Q              +MD K+  
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALD-VCLSYKVQ-------------CKMDFKI-- 184

Query: 63  LQIWDTAGQ--------ERFQSLGSAFYRGADC--CVLV-YDVNVQKTFESLQNWREEFL 111
              W             E  Q L        D        +  N++    S+Q      L
Sbjct: 185 --FWLNLKNCNSPETVLEMLQKL----LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 112 KQADPGEHEACPFVL 126
           K      +E C  VL
Sbjct: 239 KSKP---YENCLLVL 250

>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 = 39.8 bits (92), Expect = 5e-04
 Identities = 33/214 (15%), Positives = 67/214 (31%), Gaps = 59/214 (27%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT-----IGADFVTKELQ 55
           M +   + + +L++            S+ + Y+  K   + +       +    + K   
Sbjct: 405 MVVVNKLHKYSLVE----KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460

Query: 56  MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQAD 115
            DD        D             FY       + + +   +  E +  +R  FL   D
Sbjct: 461 SDDL--IPPYLD-----------QYFY-----SHIGHHLKNIEHPERMTLFRMVFL---D 499

Query: 116 PGEHEACPFVLLGNKIDTDG----GSSRVVPQKKALEWCAYRGNI----PYFE------- 160
                   F  L  KI  D      S  ++   + L++  Y+  I    P +E       
Sbjct: 500 --------FRFLEQKIRHDSTAWNASGSILNTLQQLKF--YKPYICDNDPKYERLVNAIL 549

Query: 161 ---TSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
                 +E+    + +  +  IAL  E + I+ +
Sbjct: 550 DFLPKIEENLICSK-YTDLLRIALMAEDEAIFEE 582

>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 = 43.7 bits (103), Expect = 1e-05
 Identities = 25/132 (18%), Positives = 57/132 (43%), Gaps = 8/132 (6%)

Query: 1   MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL 60
                 +  +  ++++++G    GKT+++ +    +       TIG  F  + ++   K 
Sbjct: 154 PPQPRGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETVEY--KN 208

Query: 61  VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHE 120
           ++  +WD  GQ++ + L   +++     + V D N +   E +   REE ++     E  
Sbjct: 209 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR---ERVNEAREELMRMLAEDELR 265

Query: 121 ACPFVLLGNKID 132
               ++  NK D
Sbjct: 266 DAVLLVFANKQD 277

>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 = 43.9 bits (103), Expect = 2e-05
 Identities = 25/155 (16%), Positives = 49/155 (31%), Gaps = 18/155 (11%)

Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM--DDKLVTLQIW 66
             ++L V V G++G GK+S +N        ++  A  G   VT E        +  +  W
Sbjct: 66  DSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFW 125

Query: 67  DTAG-----QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
           D  G           L    +   D  +++            +    +  K         
Sbjct: 126 DLPGIGSTNFPPDTYLEKMKFYEYDFFIIISA-------TRFKKNDIDIAKAI---SMMK 175

Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNI 156
             F  +  K+D+D  +     + +  +      +I
Sbjct: 176 KEFYFVRTKVDSDITNEA-DGEPQTFDKEKVLQDI 209

>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 Length = 172

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 36/179 (20%), Positives = 62/179 (34%), Gaps = 48/179 (26%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATI-----GA--DFVTKELQMDDKLVTLQI 65
           +KV++ G    GK+SL+N       + +  A I     G   D + + + +D   + L I
Sbjct: 5   MKVVIAGRPNAGKSSLLNA-----LAGREAA-IVTDIAGTTRDVLREHIHIDG--MPLHI 56

Query: 66  WDTAGQ------------ER-FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLK 112
            DTAG             ER +Q +  A     D  + + D       +  + W  EF+ 
Sbjct: 57  IDTAGLREASDEVERIGIERAWQEIEQA-----DRVLFMVDGTTTDAVDPAEIW-PEFIA 110

Query: 113 QADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
           +         P  ++ NK D  G +  +                     SA+    +D 
Sbjct: 111 RLPAK----LPITVVRNKADITGETLGMSEVN----------GHALIRLSARTGEGVDV 155

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A* Length = 274

 Score = 38.6 bits (89), Expect = 7e-04
 Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 8/73 (10%)

Query: 6  NMKRRNLLKVIVLGDSGVGKTSLMN--------QYVYNKFSQQYKATIGADFVTKELQMD 57
           +       ++V+G+SG+GK++L+N           Y   S + K T+  +     ++  
Sbjct: 2  PLGSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEG 61

Query: 58 DKLVTLQIWDTAG 70
             + L I DT G
Sbjct: 62 GVQLLLTIVDTPG 74

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	210
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
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	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
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	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
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	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
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	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
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	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
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	100.0
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	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
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.96
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.96
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.96
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.95
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.95
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.95
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.95
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.95
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.95
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.94
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.93
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.93
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.93
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.93
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.92
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.92
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.92
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.91
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.91
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.91
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.91
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.91
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.91
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.91
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.9
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.9
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.9
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.9
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.9
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.89
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.89
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.89
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.89
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.89
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.89
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.89
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.89
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.89
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.88
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.88
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.88
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
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.87
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.87
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.87
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.87
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.87
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.87
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.87
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.86
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.86
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.86
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.85
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.85
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.85
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.85
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.84
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.84
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.84
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.83
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.83
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.81
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.81
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.8
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.79
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.79
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.78
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.78
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.77
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.77
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.76
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.76
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.76
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.75
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.75
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.74
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.74
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.73
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.72
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.71
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.71
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.7
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.69
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.69
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.66
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.64
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.62
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.62
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.59
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.59
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.59
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.56
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.47
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.46
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.37
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.37
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.29
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.19
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.15
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.13
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.06
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.02
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.02
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.95
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.93
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.89
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.8
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.65
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.6
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.57
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.45
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.38
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.38
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.3
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.28
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.23
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.07
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.07
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.01
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.98
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.91
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.65
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.56
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.51
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.51
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.47
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.44
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.42
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.41
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.4
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.39
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.37
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.37
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.35
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.35
2xxa_A	433	Signal recognition particle protein; protein trans	97.34
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.34
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.33
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.32
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.31
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.3
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.29
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.28
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.27
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.25
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.24
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.23
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.23
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.22
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.21
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.21
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.2
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.19
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.19
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.18
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.18
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.17
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.16
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.15
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.14
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.14
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.14
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.14
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.14
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.12
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.12
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.11
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.11
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.11
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.1
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.1
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.09
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.08
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	97.08
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.08
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.08
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.07
1g6h_A	257	High-affinity branched-chain amino acid transport	97.06
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.06
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.06
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.06
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.05
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.05
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.05
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.04
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.04
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.04
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.04
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.04
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.03
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.03
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.03
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.03
3cwq_A	209	Para family chromosome partitioning protein; alpha	97.03
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.02
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.02
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.02
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.02
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.02
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.02
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.01
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.01
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.0
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.0
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.0
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.0
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.0
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.99
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.99
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.99
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.99
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.98
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.98
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.98
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.98
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.97
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.97
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.97
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.96
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.96
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.96
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.96
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.95
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.94
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.94
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.93
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.92
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.91
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.9
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.9
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.9
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.89
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.89
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.89
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.89
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.89
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.88
1via_A	175	Shikimate kinase; structural genomics, transferase	96.87
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.86
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.85
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.85
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.84
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.84
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.84
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.82
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.81
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.79
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.79
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.79
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.79
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.79
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.78
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.78
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.77
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.77
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.77
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.76
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.75
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.75
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.75
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.75
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.74
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.74
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.73
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.73
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.72
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.72
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.72
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.71
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.71
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.71
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.69
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.69
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.69
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.68
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.67
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.66
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.66
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.65
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.64
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.63
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.63
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.6
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.59
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.59
3bos_A	242	Putative DNA replication factor; P-loop containing	96.58
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.58
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.56
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.55
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.55
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.54
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.53
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.52
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.51
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.5
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.5
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.48
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.46
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.46
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.46
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.45
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.44
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.43
2og2_A	359	Putative signal recognition particle receptor; nuc	96.43
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.42
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.39
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.36
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.33
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.32
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.32
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.31
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.31
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.31
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.31
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.3
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.29
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.28
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.26
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.22
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.21
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.21
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.21
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.19
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.16
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.16
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.15
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.13
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.12
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.11
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.11
3co5_A	143	Putative two-component system transcriptional RES	96.07
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.05
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.05
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.04
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.04
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.04
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.02
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.02
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.02
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.02
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.01
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.0
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.0
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.95
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.95
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.95
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.94
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.94
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.93
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.93
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.93
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.92
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.91
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.9
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.89
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.89
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.89
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.88
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.87
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.86
2qgz_A	308	Helicase loader, putative primosome component; str	95.85
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.82
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.82
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.82
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.79
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.78
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.78
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.76
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.75
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.75
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.74
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.7
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.7
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.69
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.67
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.67
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.66
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.66
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.66
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.64
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.63
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.61
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.6
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.59
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.58

>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=3.5e-44  Score=258.46  Aligned_cols=195  Identities=31%  Similarity=0.563  Sum_probs=144.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +.+.|||+|+|++|+|||||+++|+.+.|...+.++.+.++.......++..+.+.+|||+|++++..+...+++.++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            34679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+|+.+..|+..+......    ++|++||+||+|+.+.  +.+..+++..+++..+ ..|+++||++|.|
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~----~~piilVgNK~Dl~~~--r~V~~~e~~~~a~~~~-~~~~e~SAktg~n  162 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGS----DVIIMLVGNKTDLADK--RQVSIEEGERKAKELN-VMFIETSAKAGYN  162 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTT----SSEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEEEBTTTTBS
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCC----CCeEEEEeeccchHhc--CcccHHHHhhHHHHhC-CeeEEEeCCCCcC
Confidence            9999999999999999999999877654    7899999999999765  7789999999999998 7899999999999


Q ss_pred             hHHHHHHHHHHHHhcccccccCCCCCc----ceeccccccccccCC
Q 028305          169 IDEAFLCVAEIALKNEHKDIYYQPQGI----SETVSEVEQRGGCAC  210 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~c~c  210 (210)
                      |+++|+.|++.+...............    ....+++.++++|||
T Consensus       163 V~e~F~~i~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~C  208 (216)
T 4dkx_A          163 VKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQEQPVSEGGCSC  208 (216)
T ss_dssp             HHHHHHHHHHHC----------------------------------
T ss_pred             HHHHHHHHHHHHHhhhcccccccccccccccCCCCCCCCCCCCCce
Confidence            999999999998766554333222222    222355566778877

>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=1.3e-37  Score=223.50  Aligned_cols=173  Identities=37%  Similarity=0.668  Sum_probs=154.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ..+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            34678999999999999999999999999888888888888888888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..++...+ .+++++||++|.
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~g~  156 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATS----TVLKLLVGNKCDLKDK--RVVEYDVAKEFADANK-MPFLETSALDST  156 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CCEEECCTTTCT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCCCccc--cccCHHHHHHHHHHcC-CeEEEEeCCCCC
Confidence            99999999999999999999988776533    7899999999999764  4566778888888877 899999999999


Q ss_pred             ChHHHHHHHHHHHHhccccc
Q 028305          168 NIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~  187 (210)
                      |++++|++|.+.+.+...+.
T Consensus       157 gi~~l~~~l~~~i~~~~~~~  176 (206)
T 2bcg_Y          157 NVEDAFLTMARQIKESMSQQ  176 (206)
T ss_dssp             THHHHHHHHHHHHHHHCCHH
T ss_pred             CHHHHHHHHHHHHHHHHhhc
Confidence            99999999999998776543

>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=6.8e-38  Score=225.01  Aligned_cols=200  Identities=61%  Similarity=1.014  Sum_probs=155.0

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADC   83 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcE
Confidence            45678999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.++..+..|+..+..........++|+++|+||+|+.+   +....+++..++......+++++||++|.
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~  160 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN---RQVATKRAQAWCYSKNNIPYFETSAKEAI  160 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC---CCSCHHHHHHHHHHTTSCCEEECBTTTTB
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcc---cccCHHHHHHHHHhcCCceEEEEeCCCCC
Confidence            999999999999999999999887765433333789999999999973   45566777888775555899999999999


Q ss_pred             ChHHHHHHHHHHHHhcccccccC--CCCCcceec-c-ccccccccCC
Q 028305          168 NIDEAFLCVAEIALKNEHKDIYY--QPQGISETV-S-EVEQRGGCAC  210 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~-~-~~~~~~~c~c  210 (210)
                      |++++|++|.+.+.+........  .++.+.... + +..+++||+|
T Consensus       161 gi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  207 (207)
T 1vg8_A          161 NVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNERAKASAESCSC  207 (207)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHSCCCC-----------------
T ss_pred             CHHHHHHHHHHHHHHhccccccccCCCccccCCcccccccCCCCCCC
Confidence            99999999999998876543321  233333222 2 2378888978

>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=7.3e-36  Score=214.21  Aligned_cols=170  Identities=30%  Similarity=0.558  Sum_probs=147.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   89 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   89 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEE
Confidence            45689999999999999999999999888777777766554 45667788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +.+..+++..++...+ .+++++||++|.|
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~g~g  163 (206)
T 2bov_A           90 LCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKSDLEDK--RQVSVEEAKNRAEQWN-VNYVETSAKTRAN  163 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTC---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEEECTTTCTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEeccCcccc--ccccHHHHHHHHHHhC-CeEEEEeCCCCCC
Confidence            9999999999999999999988876532   26899999999999754  4566778888888887 7999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|.+.+.+...
T Consensus       164 i~~l~~~l~~~i~~~~~  180 (206)
T 2bov_A          164 VDKVFFDLMREIRARKM  180 (206)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccc
Confidence            99999999999987644

>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=9.6e-36  Score=216.31  Aligned_cols=175  Identities=35%  Similarity=0.615  Sum_probs=143.8

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ..+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   88 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVG   88 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCE
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCE
Confidence            34678999999999999999999999999887778888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +.+..+++..+++..+ .+++++||++|.
T Consensus        89 vilV~D~~~~~s~~~~~~~l~~i~~~~~~----~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~  161 (223)
T 3cpj_B           89 ALIVYDISKSSSYENCNHWLSELRENADD----NVAVGLIGNKSDLAHL--RAVPTEESKTFAQENQ-LLFTETSALNSE  161 (223)
T ss_dssp             EEEEEC-CCHHHHHHHHHHHHHHHHHCC------CEEEEEECCGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCCC-CC
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCC----CCeEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCC
Confidence            99999999999999999999988776432    7899999999999753  4566778888888877 899999999999


Q ss_pred             ChHHHHHHHHHHHHhccccccc
Q 028305          168 NIDEAFLCVAEIALKNEHKDIY  189 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~~~~  189 (210)
                      |++++|++|.+.+.+...+...
T Consensus       162 gi~~l~~~l~~~i~~~~~~~~~  183 (223)
T 3cpj_B          162 NVDKAFEELINTIYQKVSKHQM  183 (223)
T ss_dssp             CHHHHHHHHHHHHTTCC-----
T ss_pred             CHHHHHHHHHHHHHHHhhhccc
Confidence            9999999999999887665543

>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=9.3e-36  Score=209.95  Aligned_cols=172  Identities=37%  Similarity=0.671  Sum_probs=124.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            46789999999999999999999998888877888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +.+..+++..+++..+ .+++++||++|.|
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~~  157 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASA----DVEKMILGNKCDVNDK--RQVSKERGEKLALDYG-IKFMETSAKANIN  157 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEEC--CCSC--CCSCHHHHHHHHHHHT-CEEEECCC---CC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECccCCcc--CcCCHHHHHHHHHHcC-CeEEEEeCCCCCC
Confidence            9999999999999999999988876433    7899999999999764  4566788888888888 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccccc
Q 028305          169 IDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~  187 (210)
                      ++++|++|.+.+.+...+.
T Consensus       158 i~~l~~~l~~~i~~~~~~~  176 (183)
T 2fu5_C          158 VENAFFTLARDIKAKMDKN  176 (183)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcc
Confidence            9999999999998766543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.1e-35  Score=206.67  Aligned_cols=174  Identities=39%  Similarity=0.728  Sum_probs=151.4

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG   84 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   84 (210)
                      +....+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   81 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRG   81 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTT
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhcc
Confidence            34456789999999999999999999999998887888888888888888899988999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++++|||++++.++..+..|+..+.....     ++|+++|+||+|+.+.  +....++...++...+ .+++++||+
T Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~  153 (181)
T 3tw8_B           82 THGVIVVYDVTSAESFVNVKRWLHEINQNCD-----DVCRILVGNKNDDPER--KVVETEDAYKFAGQMG-IQLFETSAK  153 (181)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHCT-----TSEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CCEEECBTT
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECCCCchh--cccCHHHHHHHHHHcC-CeEEEEECC
Confidence            9999999999999999999999998877653     7899999999998754  4566678888888888 799999999


Q ss_pred             CCCChHHHHHHHHHHHHhcccc
Q 028305          165 EDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      +|.|++++|++|.+.+.+...+
T Consensus       154 ~~~gi~~l~~~l~~~~~~~~~~  175 (181)
T 3tw8_B          154 ENVNVEEMFNCITELVLRAKKD  175 (181)
T ss_dssp             TTBSHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999887653

>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=1.5e-35  Score=213.66  Aligned_cols=177  Identities=30%  Similarity=0.549  Sum_probs=144.9

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      .|.....++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+
T Consensus         3 ~m~~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   81 (212)
T 2j0v_A            3 HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGA   81 (212)
T ss_dssp             CCSCCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTC
T ss_pred             CCCcCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCC
Confidence            34556789999999999999999999999988777777776554 45566788889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC------cccchHHHHHHHHHcCCCcE
Q 028305           86 DCCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS------RVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~------~~~~~~~~~~~~~~~~~~~~  158 (210)
                      |++|+|||++++.+++.+. .|+..+.....     ++|+++|+||+|+.+...      ..+..+++..++...+..++
T Consensus        82 d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  156 (212)
T 2j0v_A           82 DIFVLAFSLISKASYENVLKKWMPELRRFAP-----NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAY  156 (212)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-----TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceE
Confidence            9999999999999999986 78888877643     789999999999865310      12367788888888885699


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhcccccc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~~~~  188 (210)
                      +++||++|.|++++|++|++.+.+...+..
T Consensus       157 ~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~~  186 (212)
T 2j0v_A          157 IECSSKTQQNVKAVFDTAIKVVLQPPRRKE  186 (212)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHCC-----
T ss_pred             EEccCCCCCCHHHHHHHHHHHHhhhhhhcc
Confidence            999999999999999999999988766444

>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=1.4e-34  Score=205.97  Aligned_cols=173  Identities=38%  Similarity=0.686  Sum_probs=155.3

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      +...+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+
T Consensus        10 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (196)
T 3tkl_A           10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGA   89 (196)
T ss_dssp             -CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTC
T ss_pred             CcccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhC
Confidence            34456789999999999999999999999998888888888889888999999989999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++
T Consensus        90 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~  162 (196)
T 3tkl_A           90 HGIIVVYDVTDQESFNNVKQWLQEIDRYASE----NVNKLLVGNKCDLTTK--KVVDYTTAKEFADSLG-IPFLETSAKN  162 (196)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CCEEEECTTT
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECcccccc--cccCHHHHHHHHHHcC-CcEEEEeCCC
Confidence            9999999999999999999999998877543    7899999999999765  5666778888888888 8999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|++|.+.+.+...
T Consensus       163 g~gv~~l~~~l~~~i~~~~~  182 (196)
T 3tkl_A          163 ATNVEQSFMTMAAEIKKRMG  182 (196)
T ss_dssp             CTTHHHHHHHHHHHHHHHC-
T ss_pred             CCCHHHHHHHHHHHHHHHhc
Confidence            99999999999999988765

>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=7.3e-35  Score=205.82  Aligned_cols=175  Identities=36%  Similarity=0.585  Sum_probs=154.1

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ...+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|
T Consensus         5 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   84 (186)
T 2bme_A            5 ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAA   84 (186)
T ss_dssp             CCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCC
Confidence            34567899999999999999999999999988888888888888888888998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..++...+ .+++++||++|
T Consensus        85 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  157 (186)
T 2bme_A           85 GALLVYDITSRETYNALTNWLTDARMLASQ----NIVIILCGNKKDLDAD--REVTFLEASRFAQENE-LMFLETSALTG  157 (186)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTC
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEecCCCC
Confidence            999999999999999999999888776443    7899999999999653  4566678888888877 89999999999


Q ss_pred             CChHHHHHHHHHHHHhcccccc
Q 028305          167 CNIDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~~~~  188 (210)
                      .|++++|+++.+.+.+...+..
T Consensus       158 ~gi~~l~~~l~~~~~~~~~~~~  179 (186)
T 2bme_A          158 ENVEEAFVQCARKILNKIESGE  179 (186)
T ss_dssp             TTHHHHHHHHHHHHHHHHHSCC
T ss_pred             CCHHHHHHHHHHHHHHHhhhcC
Confidence            9999999999999988765433

>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=3.8e-35  Score=209.94  Aligned_cols=173  Identities=36%  Similarity=0.571  Sum_probs=144.1

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ...+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++++...+..+++.+|
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSAN  103 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCC
Confidence            34567899999999999999999999999888777788887887888888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +.+..+++..+++..+...++++||++|
T Consensus       104 ~iilv~D~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~NK~Dl~~~--~~v~~~~~~~~~~~~~~~~~~~~SA~~g  177 (201)
T 2hup_A          104 GAILAYDITKRSSFLSVPHWIEDVRKYAGS----NIVQLLIGNKSDLSEL--REVSLAEAQSLAEHYDILCAIETSAKDS  177 (201)
T ss_dssp             EEEEEEETTBHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTTCSEEEECBTTTT
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCccccc--cccCHHHHHHHHHHcCCCEEEEEeCCCC
Confidence            999999999999999999999998876532    7899999999999754  4566788888998888339999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|++++|++|.+.+.+...
T Consensus       178 ~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          178 SNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             BSHHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHhcc
Confidence            9999999999999987654

>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=7e-35  Score=208.44  Aligned_cols=170  Identities=38%  Similarity=0.650  Sum_probs=152.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|+|||||+++|+++.+...+.++.+.++....+.+++..+.+.+|||||++.+......+++.+|++
T Consensus        23 ~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  102 (201)
T 2ew1_A           23 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL  102 (201)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEE
Confidence            45789999999999999999999999998888888888888888888999889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +.+..+++..++...+ .+++++||++|.|
T Consensus       103 i~v~D~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~g~g  175 (201)
T 2ew1_A          103 ILTYDITCEESFRCLPEWLREIEQYASN----KVITVLVGNKIDLAER--REVSQQRAEEFSEAQD-MYYLETSAKESDN  175 (201)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CCEEECCTTTCTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCCCccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCCC
Confidence            9999999999999999999988776532    7899999999999653  4566777888888777 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|.+.+.+...
T Consensus       176 v~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          176 VEKLFLDLACRLISEAR  192 (201)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            99999999999987654

>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=7.2e-35  Score=204.93  Aligned_cols=176  Identities=35%  Similarity=0.607  Sum_probs=148.6

Q ss_pred             ccccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccc
Q 028305            3 ISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFY   82 (210)
Q Consensus         3 ~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   82 (210)
                      |.....+...++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..++
T Consensus         3 m~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   82 (181)
T 2efe_B            3 MAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYY   82 (181)
T ss_dssp             -------CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHH
T ss_pred             ccCCCCCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHh
Confidence            34455567889999999999999999999999988877778888778778888888889999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      +.+|++|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++|
T Consensus        83 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~p~i~v~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~S  155 (181)
T 2efe_B           83 RGAAAAIIVFDVTNQASFERAKKWVQELQAQGNP----NMVMALAGNKSDLLDA--RKVTAEDAQTYAQENG-LFFMETS  155 (181)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CEEEECC
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECCccccc--ccCCHHHHHHHHHHcC-CEEEEEE
Confidence            9999999999999999999999999988876533    7899999999999754  5566788888888877 8999999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |++|.|++++|++|.+.+.+.++
T Consensus       156 a~~g~gi~~l~~~l~~~~~~~~~  178 (181)
T 2efe_B          156 AKTATNVKEIFYEIARRLPRVQP  178 (181)
T ss_dssp             SSSCTTHHHHHHHHHHTCC----
T ss_pred             CCCCCCHHHHHHHHHHHHHhcCC
Confidence            99999999999999988766543

>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=2.9e-34  Score=201.15  Aligned_cols=172  Identities=52%  Similarity=0.932  Sum_probs=149.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   83 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   83 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEE
Confidence            45789999999999999999999999988878888888888888888899889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+..........++|+++|+||+|+.+   +....+++..+++.....+++++||++|.|
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (177)
T 1wms_A           84 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE---RQVSTEEAQAWCRDNGDYPYFETSAKDATN  160 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS---CSSCHHHHHHHHHHTTCCCEEECCTTTCTT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccc---cccCHHHHHHHHHhcCCceEEEEeCCCCCC
Confidence            99999999999999999999988776543344889999999999973   556778888888856668999999999999


Q ss_pred             hHHHHHHHHHHHHhc
Q 028305          169 IDEAFLCVAEIALKN  183 (210)
Q Consensus       169 v~~~~~~l~~~~~~~  183 (210)
                      ++++|+++.+.+++.
T Consensus       161 i~~l~~~l~~~~~~~  175 (177)
T 1wms_A          161 VAAAFEEAVRRVLAT  175 (177)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999998764

>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=8e-35  Score=206.62  Aligned_cols=172  Identities=36%  Similarity=0.668  Sum_probs=148.6

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....+||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   96 (191)
T 2a5j_A           17 RGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAG   96 (191)
T ss_dssp             TTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCE
Confidence            34678999999999999999999999998887777787878878888889988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ ..++++||++|.
T Consensus        97 ii~v~d~~~~~s~~~~~~~l~~i~~~~~~----~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~  169 (191)
T 2a5j_A           97 ALLVYDITRRETFNHLTSWLEDARQHSSS----NMVIMLIGNKSDLESR--RDVKREEGEAFAREHG-LIFMETSAKTAC  169 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEEECTTTCT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECcccCCc--cccCHHHHHHHHHHcC-CEEEEEeCCCCC
Confidence            99999999999999999999988776433    7899999999999653  4566778888888887 799999999999


Q ss_pred             ChHHHHHHHHHHHHhcccc
Q 028305          168 NIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~  186 (210)
                      |++++|++|.+.+.+...+
T Consensus       170 gi~~l~~~l~~~i~~~~~~  188 (191)
T 2a5j_A          170 NVEEAFINTAKEIYRKIQQ  188 (191)
T ss_dssp             THHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHh
Confidence            9999999999999876553

>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=1.4e-34  Score=203.62  Aligned_cols=171  Identities=28%  Similarity=0.402  Sum_probs=149.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +....++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++.+......+++.+|+
T Consensus         2 ~~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   80 (181)
T 3t5g_A            2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDING   80 (181)
T ss_dssp             CCEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSE
T ss_pred             CCCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCE
Confidence            456789999999999999999999998888877778877666 6777888988999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +.+..+++..+++..+ .+++++||++|.
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  154 (181)
T 3t5g_A           81 YILVYSVTSIKSFEVIKVIHGKLLDMVGK---VQIPIMLVGNKKDLHME--RVISYEEGKALAESWN-AAFLESSAKENQ  154 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHC-------CCEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CEEEECCTTSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECccchhc--ceecHHHHHHHHHHhC-CcEEEEecCCCC
Confidence            99999999999999999999888766432   26899999999999754  6677888999999888 799999999999


Q ss_pred             ChHHHHHHHHHHHHhccc
Q 028305          168 NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~  185 (210)
                      |++++|++|.+.+.+.+.
T Consensus       155 ~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          155 TAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             HHHHHHHHHHHHHHTC--
T ss_pred             CHHHHHHHHHHHHHHhcC
Confidence            999999999999987754

>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=2.7e-34  Score=204.39  Aligned_cols=172  Identities=27%  Similarity=0.508  Sum_probs=149.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....+||+|+|++|+|||||+++|.++.+...+.++.+..+. .....++..+.+.+|||||++.+...+..+++.+|+
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   97 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDV   97 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcE
Confidence            3567899999999999999999999999988777777776664 466788888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           88 CVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      +++|||++++.++..+ ..|+..+.....     ++|+++|+||+|+.+...+....+++..+++..+...++++||++|
T Consensus        98 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  172 (194)
T 3reg_A           98 VLLCFAVNNRTSFDNISTKWEPEIKHYID-----TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAK  172 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCT-----TSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCC
Confidence            9999999999999997 678777776543     7899999999999865557788899999999998444999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|++++|++|.+.+.+...
T Consensus       173 ~gi~~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          173 IGLNEVFEKSVDCIFSNKP  191 (194)
T ss_dssp             BSHHHHHHHHHHHHHCSCC
T ss_pred             CCHHHHHHHHHHHHHhcCC
Confidence            9999999999999987754

>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=8.7e-35  Score=204.56  Aligned_cols=177  Identities=59%  Similarity=0.995  Sum_probs=138.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.++ +..+.+.+|||||++.+...+..+++.+|
T Consensus         4 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   83 (182)
T 1ky3_A            4 RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGAD   83 (182)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCC
T ss_pred             ccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCC
Confidence            45678999999999999999999999998887777888777777777776 55688999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.+++.+..|+..+..........++|+++|+||+|+.... +....+++..++......+++++||++|
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  162 (182)
T 1ky3_A           84 CCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK-KIVSEKSAQELAKSLGDIPLFLTSAKNA  162 (182)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG-CCSCHHHHHHHHHHTTSCCEEEEBTTTT
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccccc-ccCCHHHHHHHHHhcCCCeEEEEecCCC
Confidence            999999999999999999999998877654444588999999999995431 3456777888887566689999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|++++|++|.+.+.+.++
T Consensus       163 ~gi~~l~~~l~~~~~~~~~  181 (182)
T 1ky3_A          163 INVDTAFEEIARSALQQNQ  181 (182)
T ss_dssp             BSHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhc
Confidence            9999999999999987643

>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=4e-34  Score=202.65  Aligned_cols=168  Identities=35%  Similarity=0.655  Sum_probs=149.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|++
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   98 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   98 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEE
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEE
Confidence            45689999999999999999999999988877778888888778888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|
T Consensus        99 i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~g~g  171 (189)
T 2gf9_A           99 LLMYDIANQESFAAVQDWATQIKTYSWD----NAQVILVGNKCDLEDE--RVVPAEDGRRLADDLG-FEFFEASAKENIN  171 (189)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTTBS
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECcccccc--cCCCHHHHHHHHHHcC-CeEEEEECCCCCC
Confidence            9999999999999999999988776432    7899999999999654  4556778888888888 7999999999999


Q ss_pred             hHHHHHHHHHHHHhc
Q 028305          169 IDEAFLCVAEIALKN  183 (210)
Q Consensus       169 v~~~~~~l~~~~~~~  183 (210)
                      ++++|++|.+.+.+.
T Consensus       172 i~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          172 VKQVFERLVDVICEK  186 (189)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998765

>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=1.2e-34  Score=201.71  Aligned_cols=167  Identities=39%  Similarity=0.662  Sum_probs=141.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++++......+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            45789999999999999999999999988877888888888878888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|+|++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  155 (170)
T 1z08_A           83 ILVYDITDEDSFQKVKNWVKELRKMLGN----EICLCIVGNKIDLEKE--RHVSIQEAESYAESVG-AKHYHTSAKQNKG  155 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHGG----GSEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEEEBTTTTBS
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCC----CCeEEEEEECcccccc--cccCHHHHHHHHHHcC-CeEEEecCCCCCC
Confidence            9999999999999999998888765432    6799999999999754  4566778888888887 8999999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 028305          169 IDEAFLCVAEIALK  182 (210)
Q Consensus       169 v~~~~~~l~~~~~~  182 (210)
                      ++++|++|.+.+.+
T Consensus       156 i~~l~~~l~~~~~~  169 (170)
T 1z08_A          156 IEELFLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998864

>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=1.8e-34  Score=205.03  Aligned_cols=173  Identities=34%  Similarity=0.625  Sum_probs=151.2

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      ....+..++|+|+|++|+|||||+++|.+..+...+.++.+.++......+++..+.+.+|||||++.+...+..+++.+
T Consensus        19 ~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   98 (193)
T 2oil_A           19 SEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGA   98 (193)
T ss_dssp             -CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccC
Confidence            34456789999999999999999999999998877778888888888888888899999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++|+|||++++.++..+..|+..+.....    .++|+++|+||+|+.+.  +....+++..++...+ ..++++||++
T Consensus        99 d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~----~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~  171 (193)
T 2oil_A           99 VGALLVFDLTKHQTYAVVERWLKELYDHAE----ATIVVMLVGNKSDLSQA--REVPTEEARMFAENNG-LLFLETSALD  171 (193)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHTTSC----TTCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEEECTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcC----CCCeEEEEEECCCcccc--cccCHHHHHHHHHHcC-CEEEEEeCCC
Confidence            999999999999999999999888876542    27899999999999754  4456778888888777 7999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|++|.+.+.+...
T Consensus       172 ~~gi~~l~~~l~~~i~~~~~  191 (193)
T 2oil_A          172 STNVELAFETVLKEIFAKVS  191 (193)
T ss_dssp             CTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhh
Confidence            99999999999999987644

>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=5.2e-34  Score=200.34  Aligned_cols=172  Identities=38%  Similarity=0.628  Sum_probs=141.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      ...+..++|+|+|++|+|||||+++|.+..+. ..+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            34567899999999999999999999998875 45677888888777778899889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|+|++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...+++..+ .+++++||++
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~  157 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQH----DVALMLLGNKVDSAHE--RVVKREDGEKLAKEYG-LPFMETSAKT  157 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECCSTTSC--CCSCHHHHHHHHHHHT-CCEEECCTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEECcccCcc--cccCHHHHHHHHHHcC-CeEEEEeCCC
Confidence            9999999999999999999999888876542    7899999999999764  5566778888888887 7999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|++|.+.+.+...
T Consensus       158 ~~gi~~l~~~l~~~~~~~~~  177 (180)
T 2g6b_A          158 GLNVDLAFTAIAKELKRRSM  177 (180)
T ss_dssp             CTTHHHHHHHHHHHHHC---
T ss_pred             CCCHHHHHHHHHHHHHHHhc
Confidence            99999999999999876543

>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=4.5e-34  Score=201.32  Aligned_cols=169  Identities=31%  Similarity=0.538  Sum_probs=149.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ....+.+||+|+|++|+|||||+++|.+..+...+.++.+..+ ......++..+.+.+|||||++.+......+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d   91 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGD   91 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCS
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            3456799999999999999999999999988878878877666 677788898899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC-C
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK-E  165 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~  165 (210)
                      ++++|||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +.+..+++..+++..+ .+++++||+ +
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~  165 (183)
T 3kkq_A           92 GFLIVYSVTDKASFEHVDRFHQLILRVKDR---ESFPMILVANKVDLMHL--RKVTRDQGKEMATKYN-IPYIETSAKDP  165 (183)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTS---SCCCEEEEEECTTCSTT--CCSCHHHHHHHHHHHT-CCEEEEBCSSS
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEECCCchhc--cCcCHHHHHHHHHHhC-CeEEEeccCCC
Confidence            999999999999999999999888765332   27899999999999764  6677888999999988 899999999 9


Q ss_pred             CCChHHHHHHHHHHHHh
Q 028305          166 DCNIDEAFLCVAEIALK  182 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~  182 (210)
                      |.|++++|++|.+.+.+
T Consensus       166 ~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          166 PLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             CBSHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhh
Confidence            99999999999998875

>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=3e-34  Score=202.51  Aligned_cols=170  Identities=22%  Similarity=0.332  Sum_probs=144.4

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      .+.+...+||+|+|++|+|||||+++|+++.+...+.++. . .+...+.+++..+.+.+|||+|++.+.     +++.+
T Consensus        14 ~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~   86 (184)
T 3ihw_A           14 LYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-G-RFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWV   86 (184)
T ss_dssp             --CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-E-EEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHC
T ss_pred             CCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-c-eEEEEEEECCEEEEEEEEECCCChhhh-----eecCC
Confidence            3456789999999999999999999999999887666663 3 334777889999999999999998766     77889


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|||++++.+++.+..|+..+.....   ..++|+++|+||+|+.+...+.+..+++..+++..+...++++||++
T Consensus        87 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  163 (184)
T 3ihw_A           87 DAVVFVFSLEDEISFQTVYNYFLRLCSFRN---ASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATY  163 (184)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHTTSC---GGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTT
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCC
Confidence            999999999999999999999998876532   12789999999999965444778888999999988778999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|++|++.+.+.++
T Consensus       164 ~~gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          164 GLNVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             TBTHHHHHHHHHHHHHHHC-
T ss_pred             CCCHHHHHHHHHHHHHHHhc
Confidence            99999999999999987754

>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=4.3e-34  Score=204.69  Aligned_cols=172  Identities=31%  Similarity=0.629  Sum_probs=152.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ..+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            34578999999999999999999999998887777888888887888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..++...+ .+++++||++|.
T Consensus        84 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  156 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQDWSTQIKTYSWD----NAQVLLVGNKCDMEDE--RVVSSERGRQLADHLG-FEFFEASAKDNI  156 (203)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCS----SCEEEEEEECTTCTTS--CCSCHHHHHHHHHHHT-CEEEECBTTTTB
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECcccCcc--cccCHHHHHHHHHHCC-CeEEEEECCCCC
Confidence            99999999999999999999988776432    7899999999999764  4566788888888888 799999999999


Q ss_pred             ChHHHHHHHHHHHHhcccc
Q 028305          168 NIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~~  186 (210)
                      |++++|++|.+.+.+....
T Consensus       157 gi~~l~~~l~~~i~~~~~~  175 (203)
T 1zbd_A          157 NVKQTFERLVDVICEKMSE  175 (203)
T ss_dssp             SSHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHh
Confidence            9999999999998876543

>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=1.3e-34  Score=206.95  Aligned_cols=172  Identities=38%  Similarity=0.620  Sum_probs=142.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|+|||||+++|+++.+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  101 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGA  101 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEE
Confidence            46789999999999999999999999888877788888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |+|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ ..++++||++|.|
T Consensus       102 i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~SA~~g~g  174 (200)
T 2o52_A          102 LLVYDITSRETYNSLAAWLTDARTLASP----NIVVILCGNKKDLDPE--REVTFLEASRFAQENE-LMFLETSALTGEN  174 (200)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEEECTTTCTT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECCCcccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCCC
Confidence            9999999999999999999888776543    7899999999999653  4566677888888877 8999999999999


Q ss_pred             hHHHHHHHHHHHHhccccc
Q 028305          169 IDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~  187 (210)
                      ++++|++|.+.+.+...+.
T Consensus       175 i~~l~~~l~~~i~~~~~~~  193 (200)
T 2o52_A          175 VEEAFLKCARTILNKIDSG  193 (200)
T ss_dssp             HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhcC
Confidence            9999999999998776543

>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=3.2e-34  Score=201.15  Aligned_cols=169  Identities=34%  Similarity=0.647  Sum_probs=148.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ...+..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            34567899999999999999999999999888777788887887888888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  162 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNP----NTVIILIGNKADLEAQ--RDVTYEEAKQFAEENG-LLFLEASAKTG  162 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTC
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEeCCCC
Confidence            999999999999999999999888776543    7899999999999653  4566778888888887 89999999999


Q ss_pred             CChHHHHHHHHHHHHh
Q 028305          167 CNIDEAFLCVAEIALK  182 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~  182 (210)
                      .|++++|++|.+.+.+
T Consensus       163 ~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          163 ENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             TTHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHhh
Confidence            9999999999998764

>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=3.4e-34  Score=199.38  Aligned_cols=166  Identities=39%  Similarity=0.735  Sum_probs=142.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            57899999999999999999999998887788888888877888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.++..+..|+..+......    ++|+++|+||+|+.+   +....++...+++..+ .+++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gv~  153 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHAND----EAQLLLVGNKSDMET---RVVTADQGEALAKELG-IPFIESSAKNDDNVN  153 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCTT---CCSCHHHHHHHHHHHT-CCEEECBTTTTBSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECccCCc---CccCHHHHHHHHHHcC-CeEEEEECCCCCCHH
Confidence            99999999999999999988876543    779999999999943   4566778888888887 799999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 028305          171 EAFLCVAEIALKNE  184 (210)
Q Consensus       171 ~~~~~l~~~~~~~~  184 (210)
                      ++|++|.+.+.+..
T Consensus       154 ~l~~~l~~~~~~~~  167 (170)
T 1g16_A          154 EIFFTLAKLIQEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999997653

>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=2.4e-34  Score=200.12  Aligned_cols=166  Identities=37%  Similarity=0.669  Sum_probs=146.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...++|+|+|++|+|||||+++|+++.+...+.++.+.++......+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            45689999999999999999999999988877778888888778888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~g~g  155 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASP----NIVIALSGNKADLANK--RAVDFQEAQSYADDNS-LLFMETSAKTSMN  155 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECccCccc--cccCHHHHHHHHHHcC-CeEEEEeCCCCCC
Confidence            9999999999999999999888876433    7899999999999653  4456677888888777 8999999999999


Q ss_pred             hHHHHHHHHHHHH
Q 028305          169 IDEAFLCVAEIAL  181 (210)
Q Consensus       169 v~~~~~~l~~~~~  181 (210)
                      ++++|++|.+.+.
T Consensus       156 i~~l~~~i~~~~~  168 (170)
T 1r2q_A          156 VNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988653

>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=1.9e-34  Score=202.33  Aligned_cols=172  Identities=23%  Similarity=0.374  Sum_probs=142.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      |.....+||+|+|++|+|||||+++|.++.+.. +.++.+..+ ...+.+++..+.+.+|||+|++.     ..+++++|
T Consensus         2 m~~~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d   74 (178)
T 2iwr_A            2 MRSIPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWAD   74 (178)
T ss_dssp             CCCCCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCC
Confidence            456678999999999999999999999998875 566665444 56677888889999999999876     45778899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.+++.+..|+..+....... ..++|+++|+||+|+.+...+.+..+++..++...+..+++++||++|
T Consensus        75 ~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  153 (178)
T 2iwr_A           75 AVIFVFSLEDENSFQAVSRLHGQLSSLRGEG-RGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYG  153 (178)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHCSS-SCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTT
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEecccc
Confidence            9999999999999999999877666553321 137899999999999543346777888888888775589999999999


Q ss_pred             CChHHHHHHHHHHHHhcccc
Q 028305          167 CNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~~  186 (210)
                      .|++++|+++.+.+.+..+.
T Consensus       154 ~~i~~lf~~l~~~~~~~~~~  173 (178)
T 2iwr_A          154 LNVDRVFQEVAQKVVTLRKQ  173 (178)
T ss_dssp             BTHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhh
Confidence            99999999999999887653

>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=1.6e-34  Score=205.25  Aligned_cols=170  Identities=38%  Similarity=0.672  Sum_probs=143.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  101 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKG  101 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCE
Confidence            34678999999999999999999999988877777888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +.+..+++..+++......++++||++|.
T Consensus       102 iilV~D~~~~~s~~~~~~~~~~i~~~~~~----~~piilV~NK~Dl~~~--~~v~~~~~~~~~~~~~~~~~~~~SA~~g~  175 (192)
T 2il1_A          102 IILVYDITKKETFDDLPKWMKMIDKYASE----DAELLLVGNKLDCETD--REITRQQGEKFAQQITGMRFCEASAKDNF  175 (192)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHTSTTCEEEECBTTTTB
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECcccccc--cccCHHHHHHHHHhcCCCeEEEEeCCCCC
Confidence            99999999999999999998888776443    7899999999999654  45667778888887655899999999999


Q ss_pred             ChHHHHHHHHHHHHhc
Q 028305          168 NIDEAFLCVAEIALKN  183 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~  183 (210)
                      |++++|++|.+.+.+.
T Consensus       176 gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          176 NVDEIFLKLVDDILKK  191 (192)
T ss_dssp             SHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999988753

>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=5.2e-34  Score=200.41  Aligned_cols=172  Identities=32%  Similarity=0.513  Sum_probs=148.4

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......++|+|+|++|+|||||+++|.+..+...+.++.+..+. .....++..+.+.+|||||++++...+..+++.+|
T Consensus         4 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d   82 (181)
T 2fn4_A            4 PPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGH   82 (181)
T ss_dssp             CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCC
Confidence            34567899999999999999999999999888777777776664 66778888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +....++...++...+ ..++++||++|
T Consensus        83 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~  156 (181)
T 2fn4_A           83 GFLLVFAINDRQSFNEVGKLFTQILRVKDR---DDFPVVLVGNKADLESQ--RQVPRSEASAFGASHH-VAYFEASAKLR  156 (181)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHTS---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTT
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--cccCHHHHHHHHHHcC-CeEEEecCCCC
Confidence            999999999999999999998888654321   27899999999999754  4566777888888777 79999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|++++|++|.+.+.+..+
T Consensus       157 ~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          157 LNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             BSHHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHhhc
Confidence            9999999999999987655

>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=4.4e-34  Score=198.45  Aligned_cols=165  Identities=36%  Similarity=0.698  Sum_probs=147.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++++......+++.+|+++
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            46899999999999999999999999888788888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+++.+..|+..+.....     +.|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i  154 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEVG-----DIPTALVQNKIDLLDD--SCIKNEEAEGLAKRLK-LRFYRTSVKEDLNV  154 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHC-----SCCEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CEEEECBTTTTBSS
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECcccCcc--cccCHHHHHHHHHHcC-CeEEEEecCCCCCH
Confidence            99999999999999999988877652     7899999999999753  4456778888888887 79999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 028305          170 DEAFLCVAEIALK  182 (210)
Q Consensus       170 ~~~~~~l~~~~~~  182 (210)
                      +++|++|.+.+.+
T Consensus       155 ~~l~~~l~~~~~~  167 (168)
T 1z2a_A          155 SEVFKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998864

>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=1.1e-33  Score=201.04  Aligned_cols=171  Identities=36%  Similarity=0.623  Sum_probs=150.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   90 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   90 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCE
Confidence            34568999999999999999999999999887888888888888888889999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +|+|||++++.++..+..|+..+.....   ..++|+++|+||+|+.+   +....++...+++..+ ..++++||++|.
T Consensus        91 ii~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~~p~ilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  163 (195)
T 1x3s_A           91 VILVYDVTRRDTFVKLDNWLNELETYCT---RNDIVNMLVGNKIDKEN---REVDRNEGLKFARKHS-MLFIEASAKTCD  163 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCS---CSCCEEEEEEECTTSSS---CCSCHHHHHHHHHHTT-CEEEECCTTTCT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcC---cCCCcEEEEEECCcCcc---cccCHHHHHHHHHHcC-CEEEEecCCCCC
Confidence            9999999999999999999888865432   23789999999999954   4566778888888877 899999999999


Q ss_pred             ChHHHHHHHHHHHHhccc
Q 028305          168 NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~  185 (210)
                      |++++|++|.+.+.+...
T Consensus       164 gi~~l~~~l~~~~~~~~~  181 (195)
T 1x3s_A          164 GVQCAFEELVEKIIQTPG  181 (195)
T ss_dssp             THHHHHHHHHHHHHTSGG
T ss_pred             CHHHHHHHHHHHHHhhhh
Confidence            999999999999987543

>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=2.2e-34  Score=205.48  Aligned_cols=170  Identities=28%  Similarity=0.430  Sum_probs=142.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+|||||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   83 (199)
T 2gf0_A            5 QSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAF   83 (199)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEE
T ss_pred             CCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEE
Confidence            35679999999999999999999999888766666665444 34566788889999999999999988888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......  ..++|+++|+||+|+.+   +....++...++...+ ..++++||++|.|
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  157 (199)
T 2gf0_A           84 ILVFSVTSKQSLEELGPIYKLIVQIKGS--VEDIPVMLVGNKCDETQ---REVDTREAQAVAQEWK-CAFMETSAKMNYN  157 (199)
T ss_dssp             EEEEETTCHHHHHTTHHHHHHHHHHHSC--GGGSCEEEEEECTTCSS---CSSCHHHHHHHHHHHT-CEEEECBTTTTBS
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhcC--CCCCCEEEEEECccCCc---cccCHHHHHHHHHHhC-CeEEEEecCCCCC
Confidence            9999999999999988888777665421  12679999999999975   4456677788888877 7999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|.+.+.+.+.
T Consensus       158 i~~l~~~l~~~~~~~~~  174 (199)
T 2gf0_A          158 VKELFQELLTLETRRNM  174 (199)
T ss_dssp             HHHHHHHHHHHCSSSCE
T ss_pred             HHHHHHHHHHHHhhhhc
Confidence            99999999998766544

>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=5.1e-35  Score=207.65  Aligned_cols=172  Identities=34%  Similarity=0.619  Sum_probs=152.5

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .+.+..+||+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|
T Consensus        18 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   97 (191)
T 3dz8_A           18 GNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAM   97 (191)
T ss_dssp             TEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCC
T ss_pred             cccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCC
Confidence            34567899999999999999999999998888777788887888888888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|
T Consensus        98 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  170 (191)
T 3dz8_A           98 GFILMYDITNEESFNAVQDWATQIKTYSWD----NAQVILVGNKCDMEEE--RVVPTEKGQLLAEQLG-FDFFEASAKEN  170 (191)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTT
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCCCccc--cccCHHHHHHHHHHcC-CeEEEEECCCC
Confidence            999999999999999999999998876533    7899999999999654  5677788888888888 79999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .|++++|++|.+.+.+...
T Consensus       171 ~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          171 ISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             BSHHHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHHhcc
Confidence            9999999999999987644

>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=8.9e-34  Score=197.28  Aligned_cols=166  Identities=37%  Similarity=0.642  Sum_probs=147.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ..+.++|+|+|++|+|||||+++|.+..+...+.++.+.++.......++....+.+|||||++.+......+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            34679999999999999999999999998877788888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+......    .+|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~----~~~iilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~~  155 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPP----SIVVAIAGNKCDLTDV--REVMERDAKDYADSIH-AIFVETSAKNAIN  155 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCT----TSEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTTBS
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEECCccccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCcC
Confidence            9999999999999999999888876433    7899999999999754  4566778888888777 8999999999999


Q ss_pred             hHHHHHHHHHHHH
Q 028305          169 IDEAFLCVAEIAL  181 (210)
Q Consensus       169 v~~~~~~l~~~~~  181 (210)
                      ++++|++|.+.+.
T Consensus       156 i~~l~~~i~~~i~  168 (170)
T 1z0j_A          156 INELFIEISRRIP  168 (170)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998764

>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=3.6e-34  Score=200.85  Aligned_cols=167  Identities=34%  Similarity=0.605  Sum_probs=147.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        11 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           11 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             -CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            34679999999999999999999999988888888888888888888999889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  163 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGS----DVIIMLVGNKTDLSDK--RQVSTEEGERKAKELN-VMFIETSAKAGYN  163 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTT----SSEEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-CEEEEEBTTTTBS
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECCccccc--CcCCHHHHHHHHHHcC-CeEEEEeCCCCCC
Confidence            9999999999999999999888776433    7899999999999754  4556677888888777 8999999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 028305          169 IDEAFLCVAEIALK  182 (210)
Q Consensus       169 v~~~~~~l~~~~~~  182 (210)
                      ++++|++|.+.+.+
T Consensus       164 i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          164 VKQLFRRVAAALPG  177 (179)
T ss_dssp             HHHHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999887643

>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=5.6e-34  Score=198.22  Aligned_cols=165  Identities=36%  Similarity=0.660  Sum_probs=145.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.++|+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++++
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            46899999999999999999999998887778888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC-CcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS-SRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      |+|++++.++..+..|+..+......    ++|+++|+||+|+.+.. .+.+..++...++...+ .+++++||++|.|+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~gi  156 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASK----DIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKG-LLFFETSAKTGENV  156 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHT-CEEEECCTTTCTTH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCC----CCcEEEEEECCCccccccccCCCHHHHHHHHHHcC-CEEEEEeCCCCCCH
Confidence            99999999999999999888876533    78999999999986532 24566777888888877 79999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          170 DEAFLCVAEIA  180 (210)
Q Consensus       170 ~~~~~~l~~~~  180 (210)
                      +++|++|.+.+
T Consensus       157 ~~l~~~l~~~i  167 (170)
T 1ek0_A          157 NDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>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=4e-34  Score=203.67  Aligned_cols=173  Identities=21%  Similarity=0.251  Sum_probs=141.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-cccccccCC
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-LGSAFYRGA   85 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~   85 (210)
                      ......++|+|+|++|||||||+++|.+........++.+.+.....+.+++..+.+.+|||+|++.+.. +...+++.+
T Consensus        18 ~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~   97 (195)
T 3cbq_A           18 GQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTG   97 (195)
T ss_dssp             ----CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHC
T ss_pred             CCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccC
Confidence            3456789999999999999999999976544433445555666667778899999999999999987664 667778899


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++|+|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +.+..+++..+++..+ ..++++||++
T Consensus        98 d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~v~~~~~~~~a~~~~-~~~~e~Sa~~  171 (195)
T 3cbq_A           98 DAFLIVFSVTDRRSFSKVPETLLRLRAGRPH---HDLPVILVGNKSDLARS--REVSLEEGRHLAGTLS-CKHIETSAAL  171 (195)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSTT---SCCCEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CEEEEEBTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEeechhcccc--CCcCHHHHHHHHHHhC-CEEEEEcCCC
Confidence            9999999999999999999999888765421   26899999999999764  5567788888888887 7999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|+++++.+.+.+.
T Consensus       172 ~~~v~~lf~~l~~~i~~~~~  191 (195)
T 3cbq_A          172 HHNTRELFEGAVRQIRLRRG  191 (195)
T ss_dssp             TBSHHHHHHHHHHHHHTTC-
T ss_pred             CCCHHHHHHHHHHHHHHhcC
Confidence            99999999999999876543

>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=2.2e-34  Score=201.91  Aligned_cols=173  Identities=34%  Similarity=0.500  Sum_probs=146.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCC-eEEEEEEEeCCCcccccccccccccCCcE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-KLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ....++|+|+|++|+|||||+++|.++.+...+.++.+.++....+.+++ ..+.+.+|||||++.+...+..+++.+|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            45689999999999999999999999888766777777777777777776 67899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||++++.+++.+..|+..+........ ..+|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-~~~~iilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  158 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESE-TQPLVALVGNKIDLEHM--RTIKPEKHLRFCQENG-FSSHFVSAKTGD  158 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHT-CCCEEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CEEEEECTTTCT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccC-CCCeEEEEEEccccccc--cccCHHHHHHHHHHcC-CcEEEEeCCCCC
Confidence            9999999999999999999888876432100 13348999999999653  4566778888888887 899999999999


Q ss_pred             ChHHHHHHHHHHHHhccc
Q 028305          168 NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~  185 (210)
                      |++++|++|.+.+.+...
T Consensus       159 gi~~l~~~l~~~~~~~~~  176 (178)
T 2hxs_A          159 SVFLCFQKVAAEILGIKL  176 (178)
T ss_dssp             THHHHHHHHHHHHTTCCC
T ss_pred             CHHHHHHHHHHHHHhhhh
Confidence            999999999999877654

>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=7.8e-34  Score=200.89  Aligned_cols=169  Identities=35%  Similarity=0.582  Sum_probs=144.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..++|+|+|++|+|||||+++|.+..+...+.++.+ +........++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            4689999999999999999999999888766666664 444566778888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+++.+..|+..+......   .++|+++|+||+|+.+   +....++...++...+ .+++++||++|.|+
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~i~v~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~g~gi  153 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDS---EDVPMVLVGNKCDLPS---RTVDTKQAQDLARSYG-IPFIETSAKTRQGV  153 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTC---SCCCEEEEEECTTSSS---CSSCHHHHHHHHHHHT-CCEEECCTTTCTTH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEECccCcc---cccCHHHHHHHHHHcC-CeEEEEeCCCCCCH
Confidence            999999999999999999988875432   2789999999999974   5566778888888888 89999999999999


Q ss_pred             HHHHHHHHHHHHhcccc
Q 028305          170 DEAFLCVAEIALKNEHK  186 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~  186 (210)
                      +++|++|.+.+.+...+
T Consensus       154 ~~l~~~l~~~~~~~~~~  170 (189)
T 4dsu_A          154 DDAFYTLVREIRKHKEK  170 (189)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhh
Confidence            99999999999877653

>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=4.4e-34  Score=202.96  Aligned_cols=169  Identities=38%  Similarity=0.615  Sum_probs=147.5

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ..+..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|+
T Consensus        19 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (192)
T 2fg5_A           19 SAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAA   98 (192)
T ss_dssp             --CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSE
T ss_pred             ccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCE
Confidence            34678999999999999999999999998877777888888877778888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~----~~piiiv~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~  171 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPE----NIVMAIAGNKCDLSDI--REVPLKDAKEYAESIG-AIVVETSAKNAI  171 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHTTT-CEEEECBTTTTB
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCC----CCcEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCc
Confidence            99999999999999999999988776532    7899999999999643  4566788888888877 899999999999


Q ss_pred             ChHHHHHHHHHHHHhc
Q 028305          168 NIDEAFLCVAEIALKN  183 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~  183 (210)
                      |++++|++|.+.+.+.
T Consensus       172 gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          172 NIEELFQGISRQIPPL  187 (192)
T ss_dssp             SHHHHHHHHHHTCC--
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            9999999999877544

>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=6.1e-34  Score=205.56  Aligned_cols=173  Identities=23%  Similarity=0.415  Sum_probs=145.0

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......+||+|+|++|+|||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+...+..+++.+|
T Consensus        22 ~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  100 (214)
T 3q3j_B           22 QPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSD  100 (214)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             CCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCe
Confidence            3445789999999999999999999999999888788887666 456677788899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCC
Q 028305           87 CCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~-~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~  155 (210)
                      ++|+|||++++.++.. +..|+..+.....     ++|+++|+||+|+.+.          ..+.+..+++..+++..+.
T Consensus       101 ~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  175 (214)
T 3q3j_B          101 AVLLCFDISRPETVDSALKKWRTEILDYCP-----STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGA  175 (214)
T ss_dssp             EEEEEEETTCTHHHHHHHTHHHHHHHHHCT-----TSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTC
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCC
Confidence            9999999999999998 6889888887643     7899999999999652          1256778899999999984


Q ss_pred             CcEEEecCCCCCC-hHHHHHHHHHHHHhccc
Q 028305          156 IPYFETSAKEDCN-IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       156 ~~~~~~Sa~~~~~-v~~~~~~l~~~~~~~~~  185 (210)
                      ..++++||++|.| ++++|+++++.+.+...
T Consensus       176 ~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          176 EIYLEGSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             SEEEECCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             CEEEEeccCCCcccHHHHHHHHHHHHhccCc
Confidence            4999999999998 99999999999987655

>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=3.2e-34  Score=204.81  Aligned_cols=174  Identities=35%  Similarity=0.596  Sum_probs=137.2

Q ss_pred             cccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccccc
Q 028305            4 SVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYR   83 (210)
Q Consensus         4 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   83 (210)
                      ..+......++|+|+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++
T Consensus        20 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   99 (199)
T 2p5s_A           20 AKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFR   99 (199)
T ss_dssp             --------CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHH
T ss_pred             cCCcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHh
Confidence            34556678899999999999999999999999887777788887887788888998999999999999999998999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----CCcccchHHHHHHHHHcCCCcEE
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----SSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+|++|+|||++++.++..+..|+..+......    ++|+++|+||+|+.+.    ..+.+..+++..++...+ .+++
T Consensus       100 ~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~-~~~~  174 (199)
T 2p5s_A          100 KADGVLLLYDVTCEKSFLNIREWVDMIEDAAHE----TVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYG-ALFC  174 (199)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHC-------CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHT-CEEE
T ss_pred             hCCEEEEEEECCChHHHHHHHHHHHHHHHhcCC----CCCEEEEEECcccccccccccccccCHHHHHHHHHHcC-CeEE
Confidence            999999999999999999999998888766433    6899999999998521    125566778888888887 7999


Q ss_pred             EecCCCCCChHHHHHHHHHHHHh
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++||++|.|++++|++|.+.+.+
T Consensus       175 ~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          175 ETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             EeeCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=4e-34  Score=204.62  Aligned_cols=173  Identities=29%  Similarity=0.430  Sum_probs=142.6

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      .++....+||+|+|++|+|||||+++|.+..+...+.++.+..+ ......++..+.+.+|||||++.+...+..+++.+
T Consensus        18 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   96 (201)
T 3oes_A           18 GMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGV   96 (201)
T ss_dssp             -----CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTC
T ss_pred             CCCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcC
Confidence            45567899999999999999999999999998877777777666 56666677778999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|||++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.  +.+..++...++...+ .+++++||++
T Consensus        97 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~  170 (201)
T 3oes_A           97 HGYVLVYSVTSLHSFQVIESLYQKLHEGHG---KTRVPVVLVGNKADLSPE--REVQAVEGKKLAESWG-ATFMESSARE  170 (201)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHC--------CCCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECCTTC
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHHhcC---CCCCCEEEEEECccCccc--cccCHHHHHHHHHHhC-CeEEEEeCCC
Confidence            999999999999999999999988876532   226899999999999754  5677788888888888 7999999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      |.|++++|++|.+.+.+...
T Consensus       171 ~~~v~~l~~~l~~~i~~~~~  190 (201)
T 3oes_A          171 NQLTQGIFTKVIQEIARVEN  190 (201)
T ss_dssp             HHHHHHHHHHHHHHHHHC--
T ss_pred             CCCHHHHHHHHHHHHHhhhh
Confidence            99999999999999988765

>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=1.5e-33  Score=200.28  Aligned_cols=173  Identities=38%  Similarity=0.631  Sum_probs=149.6

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEE-EEEEEeCCe---------EEEEEEEeCCCccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFV-TKELQMDDK---------LVTLQIWDTAGQERFQSL   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~g~~~~~~~   77 (210)
                      ..+..++|+|+|++|+|||||+++|.++.+...+.++.+.++. ...+..++.         .+.+.+|||||++.+...
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            4567899999999999999999999998888777788877776 556666655         789999999999999999


Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...+++.+|++|+|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +....+++..++...+ .+
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~  160 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYS---ENPDIVLCGNKSDLEDQ--RAVKEEEARELAEKYG-IP  160 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSS---SSCCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CC
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--cccCHHHHHHHHHHcC-CC
Confidence            999999999999999999999999999999888776531   27899999999999653  4566778888888887 79


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      ++++||++|.|++++|++|.+.+.+...+
T Consensus       161 ~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          161 YFETSAANGTNISHAIEMLLDLIMKRMER  189 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999876553

>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=1.2e-33  Score=196.60  Aligned_cols=166  Identities=22%  Similarity=0.264  Sum_probs=131.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-cccccccCCcEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-LGSAFYRGADCCVL   90 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~vi~   90 (210)
                      .+||+++|++|+|||||+++|.+..+.....++.+.+.....+.+++..+.+.+|||||++.+.. ....+++.+|++++
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            58999999999999999999997777666666666777788888999999999999999988876 66777888999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....++...+++..+ .+++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  155 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPH---HDLPVILVGNKSDLARS--REVSLEEGRHLAGTLS-CKHIETSAALHHNTR  155 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTT---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTTBSHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccC---CCCCEEEEeeCcchhhc--ccCCHHHHHHHHHHcC-CcEEEecCccCCCHH
Confidence            99999999999999999988876532   26899999999999754  5677888888998888 799999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 028305          171 EAFLCVAEIALKN  183 (210)
Q Consensus       171 ~~~~~l~~~~~~~  183 (210)
                      ++|+++.+.+...
T Consensus       156 ~l~~~l~~~i~~~  168 (169)
T 3q85_A          156 ELFEGAVRQIRLR  168 (169)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988764

>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=1.9e-33  Score=201.06  Aligned_cols=174  Identities=26%  Similarity=0.427  Sum_probs=139.3

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......++|+|+|++|+|||||+++|.+..+...+.++++..+ ...+..++..+.+.+|||||++.+...+..+++.+|
T Consensus        15 ~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (201)
T 2q3h_A           15 GAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTD   93 (201)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCS
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCc
Confidence            3456799999999999999999999998887777777765444 456777888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCC
Q 028305           87 CCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~  155 (210)
                      ++++|||++++.++..+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..++...++...+.
T Consensus        94 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  168 (201)
T 2q3h_A           94 IFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-----KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKA  168 (201)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCS-----SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCC
Confidence            999999999999999986 78888877643     78999999999996531          245667788888888885


Q ss_pred             CcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          156 IPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       156 ~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      .+++++||++|.|++++|++|.+.+.+.+.+
T Consensus       169 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~  199 (201)
T 2q3h_A          169 ASYIECSALTQKNLKEVFDAAIVAGIQYSDT  199 (201)
T ss_dssp             SEEEECCTTTCTTHHHHHHHHHHHHHHHHC-
T ss_pred             cEEEEEecCCCCCHHHHHHHHHHHHhccccc
Confidence            5999999999999999999999999877654

>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=1.3e-33  Score=199.80  Aligned_cols=170  Identities=23%  Similarity=0.393  Sum_probs=139.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ..+...+||+|+|++|+|||||+++|+++.+...+.++.+..+ .....+++..+.+.+|||+|++.+... ..+++.+|
T Consensus        16 ~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~   93 (187)
T 3c5c_A           16 FQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAH   93 (187)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCS
T ss_pred             hCCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCC
Confidence            3456789999999999999999999999988877777777665 455677888899999999999988774 67889999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC-CC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA-KE  165 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~  165 (210)
                      ++++|||++++.+++.+..|+..+...... ...++|+++|+||+|+.+.  +.+..+++..+++..+ ..++++|| ++
T Consensus        94 ~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sa~~~  169 (187)
T 3c5c_A           94 AFLVVYSVDSRQSFDSSSSYLELLALHAKE-TQRSIPALLLGNKLDMAQY--RQVTKAEGVALAGRFG-CLFFEVSACLD  169 (187)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHHH-HCCCCCEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CEEEECCSSSC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEECcchhhc--CccCHHHHHHHHHHcC-CcEEEEeecCc
Confidence            999999999999999999999988775310 0017799999999999654  5567788899998888 79999999 89


Q ss_pred             CCChHHHHHHHHHHHHh
Q 028305          166 DCNIDEAFLCVAEIALK  182 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~  182 (210)
                      |.|++++|+.|++.+.+
T Consensus       170 g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          170 FEHVQHVFHEAVREARR  186 (187)
T ss_dssp             SHHHHHHHHHHHHHHHC
T ss_pred             cccHHHHHHHHHHHHhh
Confidence            99999999999998754

>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=3.6e-33  Score=199.90  Aligned_cols=168  Identities=32%  Similarity=0.576  Sum_probs=146.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeE--------------------------
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL--------------------------   60 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------   60 (210)
                      |.++..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..                          
T Consensus         2 m~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (208)
T 3clv_A            2 MEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITN   81 (208)
T ss_dssp             CCCCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC----------------------------
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccc
Confidence            456778999999999999999999999998887888888888877777776655                          


Q ss_pred             -----------EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           61 -----------VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        61 -----------~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                                 ..+.+|||||++.+......+++.+|++++|+|++++.++..+..|+..+....      ++|+++|+|
T Consensus        82 ~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~------~~piilv~N  155 (208)
T 3clv_A           82 QHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS------NYIIILVAN  155 (208)
T ss_dssp             ---CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS------CCEEEEEEE
T ss_pred             ccccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC------CCcEEEEEE
Confidence                       889999999999999999999999999999999999999999999988887754      379999999


Q ss_pred             cCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       130 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      |+|+ ..  +....+++..+++..+ .+++++||++|.|++++|++|.+.+.+..
T Consensus       156 K~D~-~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          156 KIDK-NK--FQVDILEVQKYAQDNN-LLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CTTC-C---CCSCHHHHHHHHHHTT-CEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCc-cc--ccCCHHHHHHHHHHcC-CcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            9993 22  5667788888998887 79999999999999999999999987653

>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=1.5e-33  Score=199.76  Aligned_cols=168  Identities=36%  Similarity=0.642  Sum_probs=143.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-ccccccccCCcE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-SLGSAFYRGADC   87 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~   87 (210)
                      ....++|+|+|++|+|||||+++|+++.+...+.++.+.++....+.+++..+.+.+|||||++++. ..+..+++.+|+
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~   96 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA   96 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCE
Confidence            4567999999999999999999999999887788888888888888889988999999999999888 788889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC-
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED-  166 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-  166 (210)
                      +|+|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +....++...++...+ .+++++||++| 
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~  170 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLA---NDIPRILVGNKCDLRSA--IQVPTDLAQKFADTHS-MPLFETSAKNPN  170 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCC---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CCEEECCSSSGG
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--ceeCHHHHHHHHHHcC-CEEEEEeCCcCC
Confidence            99999999999999999999988876522   27899999999999654  4566778888888877 79999999999 


Q ss_pred             --CChHHHHHHHHHHHHh
Q 028305          167 --CNIDEAFLCVAEIALK  182 (210)
Q Consensus       167 --~~v~~~~~~l~~~~~~  182 (210)
                        .|++++|++|++.+.+
T Consensus       171 ~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          171 DNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             GGSCHHHHHHHHC-----
T ss_pred             cccCHHHHHHHHHHHHhh
Confidence              9999999999887754

>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=1.9e-33  Score=195.10  Aligned_cols=165  Identities=33%  Similarity=0.569  Sum_probs=142.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.++|+++|++|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            468999999999999999999999888777777776555 3556677888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....+++..+++..+..+++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  155 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDLEDE--RVVGKEQGQNLARQWCNCAFLESSAKSKINVN  155 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCC---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTTSCEEEECBTTTTBSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCc---CCCcEEEEEECcccccc--ccCCHHHHHHHHHHccCCcEEEecCCCCCCHH
Confidence            99999999999999998888775432   27899999999999754  45667788888888755899999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          171 EAFLCVAEIAL  181 (210)
Q Consensus       171 ~~~~~l~~~~~  181 (210)
                      ++|++|.+.+.
T Consensus       156 ~l~~~l~~~i~  166 (167)
T 1c1y_A          156 EIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998774

>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=4.5e-33  Score=198.01  Aligned_cols=169  Identities=25%  Similarity=0.428  Sum_probs=145.0

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++++...+..+++.+|+
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   92 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   92 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCE
Confidence            345789999999999999999999999988777777776554 4556777888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCC
Q 028305           88 CVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~  156 (210)
                      +++|||++++.++..+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..+++..+++..+..
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  167 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEYAP-----NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGAC  167 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-----TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCc
Confidence            99999999999999987 78888877643     78999999999997641          1356678888899888855


Q ss_pred             cEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +++++||++|.|++++|++|.+.++.
T Consensus       168 ~~~~~Sa~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          168 CYVECSALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999998763

>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=2.9e-33  Score=195.61  Aligned_cols=169  Identities=27%  Similarity=0.360  Sum_probs=132.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--ccccccccccCCcE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--FQSLGSAFYRGADC   87 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~~~~~~~~d~   87 (210)
                      ...++|+|+|++|+|||||+++|.+..+...+ ++.+.+.....+.+++..+.+.+|||||++.  +......+++.+|+
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            35799999999999999999999988776433 3444556667778888889999999999887  45666778889999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.  +.+..++...++...+ .+++++||++|.
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~---~~~~piilv~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~g~  154 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQ---ADHVPIILVGNKADLARC--REVSVEEGRACAVVFD-CKFIETSATLQH  154 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC-------CCEEEEEECTTCTTT--CCSCHHHHHHHHHHHT-SEEEECBTTTTB
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhc---cCCCCEEEEEEChhhccc--cccCHHHHHHHHHHcC-CeEEEEecCCCC
Confidence            9999999999999999999888876422   126899999999999765  4566677788888777 899999999999


Q ss_pred             ChHHHHHHHHHHHHhccc
Q 028305          168 NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~  185 (210)
                      |++++|++|.+.+.+.+.
T Consensus       155 gi~~l~~~l~~~~~~~~~  172 (175)
T 2nzj_A          155 NVAELFEGVVRQLRLRRR  172 (175)
T ss_dssp             SHHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHhhc
Confidence            999999999999877654

>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=5.3e-33  Score=200.30  Aligned_cols=169  Identities=38%  Similarity=0.717  Sum_probs=148.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   96 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGI   96 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            45679999999999999999999999988877888888888888888889889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.+++.+..|+..+......    ++|+++|+||+|+..   +....++...++...+ .+++++||++|.|
T Consensus        97 i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  168 (213)
T 3cph_A           97 ILVYDVTDERTFTNIKQWFKTVNEHAND----EAQLLLVGNKSDMET---RVVTADQGEALAKELG-IPFIESSAKNDDN  168 (213)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTTT----CSEEEEEEECTTCSS---CCSCHHHHHHHHHHHT-CCEEECBTTTTBS
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCCCcc---cccCHHHHHHHHHHcC-CEEEEEeCCCCCC
Confidence            9999999999999999999888776543    689999999999943   4566677888888877 7999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|.+.+.+...
T Consensus       169 i~~l~~~l~~~~~~~~~  185 (213)
T 3cph_A          169 VNEIFFTLAKLIQEKID  185 (213)
T ss_dssp             SHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            99999999999877654

>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=2.1e-33  Score=201.35  Aligned_cols=170  Identities=22%  Similarity=0.449  Sum_probs=143.8

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......+||+|+|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++.+......+++.+|
T Consensus        23 ~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  101 (205)
T 1gwn_A           23 PNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSD  101 (205)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             cccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCC
Confidence            3456789999999999999999999999988877777776665 455677888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCC
Q 028305           87 CCVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~  155 (210)
                      ++|+|||++++.+++.+ ..|+..+.....     ++|+++|+||+|+.+.          ..+.+..+++..+++..+.
T Consensus       102 ~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  176 (205)
T 1gwn_A          102 AVLICFDISRPETLDSVLKKWKGEIQEFCP-----NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGA  176 (205)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCT-----TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHHCC-----CCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCC
Confidence            99999999999999998 688888876643     7899999999999642          1245677888899988876


Q ss_pred             CcEEEecCC-CCCChHHHHHHHHHHHHh
Q 028305          156 IPYFETSAK-EDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       156 ~~~~~~Sa~-~~~~v~~~~~~l~~~~~~  182 (210)
                      ..++++||+ +|.|++++|+.+++.+++
T Consensus       177 ~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          177 ATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             SEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            799999999 689999999999999875

>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=2.5e-33  Score=202.39  Aligned_cols=171  Identities=30%  Similarity=0.522  Sum_probs=124.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEE
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            45689999999999999999999998888766666665444 45667888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCc
Q 028305           89 VLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ++|||++++.+++.+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..+++..+++..+...
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  184 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHFCK-----KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVA  184 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCS-----SCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSE
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCE
Confidence            9999999999999986 78888876643     78999999999997542          12456678888888888559


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++++||++|.|++++|++|.+.+.+...
T Consensus       185 ~~~~SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          185 YLECSARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999987754

>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=2.7e-33  Score=197.59  Aligned_cols=168  Identities=22%  Similarity=0.458  Sum_probs=143.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...++|+|+|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++.+......+++.+|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            56789999999999999999999999988877777776655 34567788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCc
Q 028305           89 VLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        89 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ++|||++++.+++.+ ..|+..+.....     ++|+++|+||+|+.+.          ..+.+..+++..+++..+..+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  157 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFCP-----NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAAT  157 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCT-----TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCC-----CCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcE
Confidence            999999999999998 688888876543     7899999999999642          124567788888998887679


Q ss_pred             EEEecCC-CCCChHHHHHHHHHHHHh
Q 028305          158 YFETSAK-EDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       158 ~~~~Sa~-~~~~v~~~~~~l~~~~~~  182 (210)
                      ++++||+ +|.|++++|+.+.+.+++
T Consensus       158 ~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          158 YIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             EEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            9999999 689999999999998875

>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=3.2e-33  Score=199.10  Aligned_cols=172  Identities=26%  Similarity=0.453  Sum_probs=144.2

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      ++.....++|+|+|++|+|||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++. ...+..+++.+
T Consensus        22 ~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~   99 (196)
T 2atv_A           22 SMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWG   99 (196)
T ss_dssp             -----CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHC
T ss_pred             ccCCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccC
Confidence            44566789999999999999999999999988877777776555 45567788889999999999887 67778888999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++
T Consensus       100 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~  173 (196)
T 2atv_A          100 EGFVLVYDITDRGSFEEVLPLKNILDEIKKP---KNVTLILVGNKADLDHS--RQVSTEEGEKLATELA-CAFYECSACT  173 (196)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHHTT---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-SEEEECCTTT
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhhCC---CCCcEEEEEECcccccc--cccCHHHHHHHHHHhC-CeEEEECCCc
Confidence            9999999999999999999998888775431   27899999999999754  4566788888888887 8999999999


Q ss_pred             CC-ChHHHHHHHHHHHHhccc
Q 028305          166 DC-NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~-~v~~~~~~l~~~~~~~~~  185 (210)
                      |. |++++|++|++.+.+.+.
T Consensus       174 g~~gi~~l~~~l~~~i~~~~~  194 (196)
T 2atv_A          174 GEGNITEIFYELCREVRRRRM  194 (196)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHC
T ss_pred             CCcCHHHHHHHHHHHHHhhcc
Confidence            99 999999999999987654

>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=6.3e-33  Score=195.75  Aligned_cols=170  Identities=26%  Similarity=0.478  Sum_probs=144.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||+++|.++.+...+.++.+..+ .....+++..+.+.+|||||++.+......+++.+|+++
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   81 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEE
Confidence            4679999999999999999999999888777767665444 455677888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcE
Q 028305           90 LVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      +|||++++.++..+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..++...+++..+..++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  156 (186)
T 1mh1_A           82 ICFSLVSPASFENVRAKWYPEVRHHCP-----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  156 (186)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-----TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEECCChhhHHHHHHHHHHHHHHhCC-----CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            999999999999987 68888876543     67999999999986531          134566778888888884599


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++||++|.|++++|+++.+.+.+...
T Consensus       157 ~~~Sa~~g~gi~~l~~~l~~~~~~~~~  183 (186)
T 1mh1_A          157 LECSALTQRGLKTVFDEAIRAVLCPPP  183 (186)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHSCCCC
T ss_pred             EEecCCCccCHHHHHHHHHHHHhcccc
Confidence            999999999999999999999876544

>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=1.2e-33  Score=204.34  Aligned_cols=172  Identities=40%  Similarity=0.660  Sum_probs=146.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe----------EEEEEEEeCCCccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK----------LVTLQIWDTAGQERFQSL   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~g~~~~~~~   77 (210)
                      ..+..++|+|+|++|+|||||+++|++..+...+.++.+.++....+.+++.          .+.+.+|||||++.+...
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~  100 (217)
T 2f7s_A           21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSL  100 (217)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHH
T ss_pred             CcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhH
Confidence            3467899999999999999999999998888777788887777777776665          789999999999999999


Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      +..+++.+|++|+|||++++.++..+..|+..+.....   ..++|+++|+||+|+.+.  +....+++..+++..+ .+
T Consensus       101 ~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~---~~~~piilV~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~  174 (217)
T 2f7s_A          101 TTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY---CENPDIVLIGNKADLPDQ--REVNERQARELADKYG-IP  174 (217)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCT---TTCCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CC
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC---cCCCCEEEEEECCccccc--cccCHHHHHHHHHHCC-Cc
Confidence            99999999999999999999999998888776643321   137899999999999654  4566788888888887 89


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++++||++|.|++++|++|.+.+.+...
T Consensus       175 ~~~~Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          175 YFETSAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             EEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999987654

>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=6.3e-33  Score=192.38  Aligned_cols=164  Identities=23%  Similarity=0.325  Sum_probs=120.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|.+...... .++.+..+ .....+++..+.+.+||++|++.+......+++.+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            58999999999999999999987665422 23333333 45667888999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~  153 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQT---DDVPIILVGNKSDLVRS--REVSVDEGRACAVVFD-CKFIETSAALHHNVQA  153 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC------CCCEEEEEECTTCCSS--CCSCHHHHHHHHHHTT-CEEEECBGGGTBSHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEeccccccc--cccCHHHHHHHHHHhC-CcEEEeccCCCCCHHH
Confidence            9999999999999999888764321   27899999999999765  5677788888888887 8999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 028305          172 AFLCVAEIALKN  183 (210)
Q Consensus       172 ~~~~l~~~~~~~  183 (210)
                      +|++|.+.+.+.
T Consensus       154 l~~~l~~~~~~~  165 (166)
T 3q72_A          154 LFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999988764

>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=7.9e-33  Score=191.94  Aligned_cols=165  Identities=31%  Similarity=0.578  Sum_probs=140.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+++|++|+|||||+++|.+..+...+.++.+... ...+..++..+.+.+|||||++++...+..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            469999999999999999999999888776666665554 4556778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  155 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKSDLEDK--RQVSVEEAKNRADQWN-VNYVETSAKTRANVD  155 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCC---TTSCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-CEEEECCTTTCTTHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEECcccccc--CccCHHHHHHHHHHcC-CeEEEeCCCCCCCHH
Confidence            99999999999999999888876542   26899999999999754  4566778888888887 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|+++.+.+.+
T Consensus       156 ~l~~~l~~~i~~  167 (168)
T 1u8z_A          156 KVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>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=7.5e-33  Score=195.43  Aligned_cols=170  Identities=30%  Similarity=0.558  Sum_probs=145.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+|||||++++...+..+++.+|++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   93 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   93 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEE
Confidence            45689999999999999999999999888777666665554 45567788888999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+......   .++|+++|+||+|+.+.  +....+++..+++..+ .+++++||++|.|
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  167 (187)
T 2a9k_A           94 LCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKSDLEDK--RQVSVEEAKNRAEQWN-VNYVETSAKTRAN  167 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCC---TTCCEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECcccccc--CccCHHHHHHHHHHcC-CeEEEeCCCCCCC
Confidence            9999999999999999999888876542   26799999999999654  4566778888888887 7999999999999


Q ss_pred             hHHHHHHHHHHHHhccc
Q 028305          169 IDEAFLCVAEIALKNEH  185 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~  185 (210)
                      ++++|++|.+.+.+.+.
T Consensus       168 i~~l~~~l~~~i~~~~~  184 (187)
T 2a9k_A          168 VDKVFFDLMREIRARKM  184 (187)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhc
Confidence            99999999999987654

>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=6.5e-33  Score=199.15  Aligned_cols=171  Identities=22%  Similarity=0.319  Sum_probs=136.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC--CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-ccccccccccC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF--SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-FQSLGSAFYRG   84 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~   84 (210)
                      .....+||+|+|++|+|||||+++|++...  ...+ ++++.++....+.+++..+.+.+|||+|... +..+...+++.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            446689999999999999999999996433  3332 3455666677778899889999999999776 44556677889


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++|+|||++++.+|+.+..|+..+.....   ..++|+++|+||+|+.+.  +.+..++...++...+ .+++++||+
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~---~~~~piilVgNK~DL~~~--r~v~~~e~~~~a~~~~-~~~~e~SAk  185 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQ---TEDIPIILVGNKSDLVRC--REVSVSEGRACAVVFD-CKFIETSAA  185 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGG---GTTSCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECBTT
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCcEEEEEEChHHhcC--ceEeHHHHHHHHHHcC-CEEEEEeCC
Confidence            9999999999999999999999887765321   126899999999999653  4566677777887777 799999999


Q ss_pred             CCCChHHHHHHHHHHHHhccc
Q 028305          165 EDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +|.|++++|++|++.+...+.
T Consensus       186 ~g~~v~elf~~l~~~i~~~~~  206 (211)
T 2g3y_A          186 VQHNVKELFEGIVRQVRLRRD  206 (211)
T ss_dssp             TTBSHHHHHHHHHHHHHHHCC
T ss_pred             CCCCHHHHHHHHHHHHHHhcc
Confidence            999999999999999865543

>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=6.4e-33  Score=192.24  Aligned_cols=165  Identities=32%  Similarity=0.543  Sum_probs=142.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+|+|++|+|||||+++|.++.+...+.++.+... .....+++..+.+.+|||||++.+......+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            468999999999999999999999888776666665443 5667788888999999999999999888999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +....++...+++..+ .+++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  154 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRY---EKVPVILVGNKVDLESE--REVSSSEGRALAEEWG-CPFMETSAKSKTMVD  154 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTT---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-SCEEEECTTCHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCC---CCCCEEEEEECCccccc--ccCCHHHHHHHHHHhC-CCEEEecCCCCcCHH
Confidence            99999999999999998888776432   27899999999998653  4566777888888887 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|++|.+.+.+
T Consensus       155 ~l~~~l~~~~~~  166 (167)
T 1kao_A          155 ELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999988754

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=1.1e-33  Score=203.11  Aligned_cols=172  Identities=28%  Similarity=0.455  Sum_probs=111.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC--cCCCcccceeeeEEEEEEEEeCCe--EEEEEEEeCCCcccccccccccccCC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN--KFSQQYKATIGADFVTKELQMDDK--LVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      ...++|+|+|++|+|||||+++|.+.  .+...+.++.+.++....+.+++.  .+.+.+|||||++.+...+..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            56799999999999999999999988  777677777777777778888876  78999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC-CCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG-GSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      |++|+|||++++.+++.+..|+..+...... ...++|+++|+||+|+.+ .  +.+..+++..+++..+ .+++++||+
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilv~nK~Dl~~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~  173 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPD-RERPLRAVLVANKTDLPPQR--HQVRLDMAQDWATTNT-LDFFDVSAN  173 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSC-TTSCCEEEEEEECC---------CCCHHHHHHHHHHTT-CEEEECCC-
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcc-cccCCcEEEEEECcccchhh--ccCCHHHHHHHHHHcC-CEEEEeccC
Confidence            9999999999999999999999998876541 012789999999999976 3  5566788889998888 899999999


Q ss_pred             C-CCChHHHHHHHHHHHHhccc
Q 028305          165 E-DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       165 ~-~~~v~~~~~~l~~~~~~~~~  185 (210)
                      + |.|++++|++|.+.+.+...
T Consensus       174 ~~~~gi~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          174 PPGKDADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             ------CHHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHHHHHH
Confidence            9 99999999999999887654

>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=2.2e-32  Score=195.60  Aligned_cols=167  Identities=25%  Similarity=0.492  Sum_probs=142.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...+||+|+|++|+|||||+++|.+..+...+.++.+.++. ..+..++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            56899999999999999999999999888777777766654 34677888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCCCcE
Q 028305           90 LVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        90 ~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~~~~  158 (210)
                      +|||++++.++..+ ..|...+.....     ++|+++|+||+|+.+...          +.+..+++..+++..+...+
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  176 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFCP-----NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGY  176 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHST-----TCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEE
Confidence            99999999999998 577777766543     789999999999976421          34566788888888885589


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHh
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +++||++|.|++++|++|.+.+++
T Consensus       177 ~~~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          177 LECSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999998764

>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=7.9e-32  Score=190.93  Aligned_cols=170  Identities=32%  Similarity=0.543  Sum_probs=134.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      +....++|+++|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++++...+..+++.+|+
T Consensus        17 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (190)
T 3con_A           17 QGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEG   95 (190)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSE
T ss_pred             cccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCE
Confidence            345789999999999999999999998887766666665444 4566778888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      +++|||++++.++..+..|+..+......   .++|+++|+||+|+.+   +....+++..+++..+ .+++++||++|.
T Consensus        96 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~p~ilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  168 (190)
T 3con_A           96 FLCVFAINNSKSFADINLYREQIKRVKDS---DDVPMVLVGNKCDLPT---RTVDTKQAHELAKSYG-IPFIETSAKTRQ  168 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTC---SCCCEEEEEECTTCSC---CCSCHHHHHHHHHHHT-CCEEECCTTTCT
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCC---CCCeEEEEEECCcCCc---ccCCHHHHHHHHHHcC-CeEEEEeCCCCC
Confidence            99999999999999999998888766431   2679999999999975   4456778888888888 799999999999


Q ss_pred             ChHHHHHHHHHHHHhccc
Q 028305          168 NIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       168 ~v~~~~~~l~~~~~~~~~  185 (210)
                      |++++|++|.+.+.+.+.
T Consensus       169 gi~~l~~~l~~~~~~~~~  186 (190)
T 3con_A          169 GVEDAFYTLVREIRQYRM  186 (190)
T ss_dssp             THHHHHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHHHHHHH
Confidence            999999999999987654

>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=3.5e-32  Score=195.40  Aligned_cols=171  Identities=26%  Similarity=0.465  Sum_probs=139.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.+..+...+.++.+..+. ..+..++..+.+.+|||||++.+...+..+++.+|+
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   99 (207)
T 2fv8_A           21 QSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDV   99 (207)
T ss_dssp             GGSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCE
T ss_pred             ccccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCE
Confidence            3456899999999999999999999999888777777766554 346778888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCCC
Q 028305           88 CVLVYDVNVQKTFESL-QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~~  156 (210)
                      +++|||++++.++..+ ..|+..+.....     ++|+++|+||+|+.+...          +.+..++...++...+..
T Consensus       100 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  174 (207)
T 2fv8_A          100 ILMCFSVDSPDSLENIPEKWVPEVKHFCP-----NVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAY  174 (207)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST-----TCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCC
Confidence            9999999999999988 678777776543     789999999999965311          235667788888888855


Q ss_pred             cEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      .++++||++|.|++++|++|.+.+++..
T Consensus       175 ~~~~~SA~~g~gi~el~~~l~~~i~~~~  202 (207)
T 2fv8_A          175 DYLECSAKTKEGVREVFETATRAALQKR  202 (207)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHHSCC
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999987653

>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=1.2e-32  Score=197.32  Aligned_cols=168  Identities=26%  Similarity=0.464  Sum_probs=139.0

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......+||+|+|++|+|||||+++|+.+.+...+.++.+ +.....+.+++..+.+.+|||||++.+......+++.+|
T Consensus        25 ~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (204)
T 4gzl_A           25 YFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTD  103 (204)
T ss_dssp             -----CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             hhcCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCC
Confidence            3456789999999999999999999999888777766664 444566677888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCC
Q 028305           87 CCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGN  155 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~  155 (210)
                      ++++|||++++.+++.+. .|+..+.....     ++|+++|+||+|+.+...          +.+..+++..+++..+.
T Consensus       104 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  178 (204)
T 4gzl_A          104 VFLICFSLVSPASFENVRAKWYPEVRHHCP-----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGA  178 (204)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCS-----SCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTC
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCC
Confidence            999999999999999987 78888877652     789999999999865421          22667788889998886


Q ss_pred             CcEEEecCCCCCChHHHHHHHHHHH
Q 028305          156 IPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       156 ~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      .+++++||++|.|++++|++|.+.+
T Consensus       179 ~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          179 VKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             SEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             cEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            7799999999999999999998764

>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=1.7e-33  Score=198.12  Aligned_cols=169  Identities=30%  Similarity=0.532  Sum_probs=125.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      +.....++|+++|++|+|||||+++|.++.+...+.++.+..+. ..+..++..+.+.+|||||++++...+..+++.+|
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   81 (182)
T 3bwd_D            3 MSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGAD   81 (182)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCS
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCC
Confidence            44567899999999999999999999998887666666654332 23445666788899999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC--------cccchHHHHHHHHHcCCCc
Q 028305           87 CCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS--------RVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~--------~~~~~~~~~~~~~~~~~~~  157 (210)
                      ++++|||++++.+++.+. .|+..+.....     ++|+++|+||+|+.+...        ..+..+++..+++..+..+
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  156 (182)
T 3bwd_D           82 VFILAFSLISKASYENVSKKWIPELKHYAP-----GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPA  156 (182)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHCT-----TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSE
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhCC-----CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCE
Confidence            999999999999999987 68888877643     789999999999865411        1236677888888888559


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHH
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ++++||++|.|++++|++|.+.++
T Consensus       157 ~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          157 YIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999999999999998875

>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=1.5e-32  Score=198.78  Aligned_cols=173  Identities=32%  Similarity=0.520  Sum_probs=143.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC-CeEEEEEEEeCCCcccccccccccccCCc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD-DKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .+...+||+|+|++|+|||||+++|+++.+...+.++.+........... +..+.+.+|||||++.+......++..+|
T Consensus         7 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (218)
T 4djt_A            7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGAS   86 (218)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCS
T ss_pred             cccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCC
Confidence            35678999999999999999999999888877767777666655555443 44488999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|
T Consensus        87 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~g  159 (218)
T 4djt_A           87 GAILFFDVTSRITCQNLARWVKEFQAVVGN----EAPIVVCANKIDIKNR--QKISKKLVMEVLKGKN-YEYFEISAKTA  159 (218)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHCS----SSCEEEEEECTTCC------CCHHHHHHHTTTCC-CEEEEEBTTTT
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhcCC----CCCEEEEEECCCCccc--cccCHHHHHHHHHHcC-CcEEEEecCCC
Confidence            999999999999999999999998877543    5899999999999764  4566777777877776 89999999999


Q ss_pred             CChHHHHHHHHHHHHhccccc
Q 028305          167 CNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      .|++++|++|.+.+.+...+.
T Consensus       160 ~gv~~l~~~l~~~~~~~~~~~  180 (218)
T 4djt_A          160 HNFGLPFLHLARIFTGRPDLI  180 (218)
T ss_dssp             BTTTHHHHHHHHHHHCCTTCC
T ss_pred             CCHHHHHHHHHHHHhcccccc
Confidence            999999999999998776543

>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=6.4e-33  Score=201.12  Aligned_cols=172  Identities=26%  Similarity=0.609  Sum_probs=148.7

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   85 (210)
                      .......+||+|+|++|+|||||+++|+.+.+...+.++.+.+........++..+.+.+|||||++.+...+..+++.+
T Consensus         9 ~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   88 (221)
T 3gj0_A            9 QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQA   88 (221)
T ss_dssp             TTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTC
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcC
Confidence            34456789999999999999999999887777777777887888888888899999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      |++++|||++++.++..+..|+..+.....     ++|+++|+||+|+.+...    ..+...+++..+ ..++++||++
T Consensus        89 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~~~----~~~~~~~~~~~~-~~~~~~Sa~~  158 (221)
T 3gj0_A           89 QCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-----NIPIVLCGNKVDIKDRKV----KAKSIVFHRKKN-LQYYDISAKS  158 (221)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHST-----TCCEEEEEECTTSSSCSS----CGGGCCHHHHHT-CEEEECBGGG
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCC-----CCCEEEEEECCccccccc----cHHHHHHHHHcC-CEEEEEeCCC
Confidence            999999999999999999999999988753     789999999999976422    224455666666 8999999999


Q ss_pred             CCChHHHHHHHHHHHHhccccc
Q 028305          166 DCNIDEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~~~  187 (210)
                      |.|++++|++|.+.+.......
T Consensus       159 ~~gi~~l~~~l~~~l~~~~~~~  180 (221)
T 3gj0_A          159 NYNFEKPFLWLARKLIGDPNLE  180 (221)
T ss_dssp             TBTTTHHHHHHHHHHHTCTTCC
T ss_pred             CCCHHHHHHHHHHHHHhCcccc
Confidence            9999999999999998876543

>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=2.1e-33  Score=200.02  Aligned_cols=174  Identities=19%  Similarity=0.240  Sum_probs=137.0

Q ss_pred             CccccccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-----------cceeeeEEEEEEE-EeCCeEEEEEEEeCC
Q 028305            2 DISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-----------KATIGADFVTKEL-QMDDKLVTLQIWDTA   69 (210)
Q Consensus         2 ~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~i~D~~   69 (210)
                      ...........+||+|+|++|+|||||++.+.+ .+...+           .++.+.++..... ..++..+.+.+||||
T Consensus         4 ~~~~~~~~~~~~ki~vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~   82 (198)
T 3t1o_A            4 STINFANREINFKIVYYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVP   82 (198)
T ss_dssp             CEEETTTTEEEEEEEEECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECC
T ss_pred             cccchhccccccEEEEECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCC
Confidence            333445567899999999999999999966654 444332           2344444444434 556778899999999


Q ss_pred             CcccccccccccccCCcEEEEEEECC------ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccch
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVN------VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQ  143 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~------~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~  143 (210)
                      |++.+...+..+++.+|++|+|||++      +..++..+..|+..+..     ...++|+++|+||+|+.+.    ...
T Consensus        83 G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-----~~~~~piilv~NK~Dl~~~----~~~  153 (198)
T 3t1o_A           83 GQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-----TLDDVPIVIQVNKRDLPDA----LPV  153 (198)
T ss_dssp             SCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-----CTTSSCEEEEEECTTSTTC----CCH
T ss_pred             ChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-----ccCCCCEEEEEEchhcccc----cCH
Confidence            99999999999999999999999999      45667777777666522     1237899999999999753    667


Q ss_pred             HHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          144 KKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++..+++..+..+++++||++|.|++++|++|.+.+.+...
T Consensus       154 ~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          154 EMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             HHHHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            888888888883399999999999999999999999988765

>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=8.9e-35  Score=207.69  Aligned_cols=170  Identities=38%  Similarity=0.697  Sum_probs=139.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ...+..+||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|
T Consensus        28 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d  107 (199)
T 3l0i_B           28 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAH  107 (199)
T ss_dssp             CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCS
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCC
Confidence            34567899999999999999999999998888777888888888888889998899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.+++.+..|+..+......    ++|+++|+||+|+.+.  +....++...++...+ .+++++||++|
T Consensus       108 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~p~ilv~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~vSA~~g  180 (199)
T 3l0i_B          108 GIIVVYDVTDQESFNNVKQWLQEIDRYASE----NVNKLLVGNKCDLTTK--KVVDYTTAKEFADSLG-IPFLETSAKNA  180 (199)
T ss_dssp             EEEECC-CCCSHHHHHHHHHHHHHHSCC-C----CSEEEEC-CCSSCC----CCCCSCC-CHHHHTTT-CCBCCCCC---
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhccC----CCCEEEEEECccCCcc--ccCCHHHHHHHHHHcC-CeEEEEECCCC
Confidence            999999999999999999999888665432    7899999999999754  4455566777888777 89999999999


Q ss_pred             CChHHHHHHHHHHHHhc
Q 028305          167 CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~  183 (210)
                      .|++++|++|.+.+.+.
T Consensus       181 ~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          181 TNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             HHHHHHHHHHTTTTTTT
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999998876543

>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=2.4e-31  Score=184.05  Aligned_cols=164  Identities=32%  Similarity=0.574  Sum_probs=140.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+++|++|+|||||+++|.+..+...+.++.+... ......++..+.+.+|||||++++...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T 2ce2_X            2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEE
Confidence            358999999999999999999998888766666665443 5566778888999999999999988888889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.++..+..|+..+......   .++|+++|+||+|+.+   +....++...+++..+ .+++++||++|.|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~---~~~p~iiv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  153 (166)
T 2ce2_X           81 VFAINNTKSFEDIHQYREQIKRVKDS---DDVPMVLVGNKSDLAA---RTVESRQAQDLARSYG-IPYIETSAKTRQGVE  153 (166)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTC---SCCCEEEEEECTTCSC---CCSCHHHHHHHHHHHT-CCEEEECTTTCTTHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCC---CCCcEEEEEEchhhhh---cccCHHHHHHHHHHcC-CeEEEecCCCCCCHH
Confidence            99999999999999998888776432   2679999999999976   3456677888888887 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|++|.+.+.+
T Consensus       154 ~l~~~l~~~~~~  165 (166)
T 2ce2_X          154 DAFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998754

>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=3.1e-32  Score=189.75  Aligned_cols=166  Identities=28%  Similarity=0.448  Sum_probs=138.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..++|+++|++|+|||||+++|.++.+...+.++.+..+ ......++..+.+.+|||||++++......+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            468999999999999999999999888766666665444 3455677888899999999999998888889999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+......  ..++|+++|+||+|+.+.  +....++...++...+ .+++++||++|.|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~--~~~~pii~v~nK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  155 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGD--VESIPIMLVGNKCDESPS--REVQSSEAEALARTWK-CAFMETSAKLNHNVK  155 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC-----CCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTTBSHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCC--CCCCCEEEEEEccccccc--cccCHHHHHHHHHHhC-CeEEEecCCCCcCHH
Confidence            99999999999988888888765431  126799999999999654  4455667777887777 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|++|.+.+.+
T Consensus       156 ~l~~~l~~~~~~  167 (172)
T 2erx_A          156 ELFQELLNLEKR  167 (172)
T ss_dssp             HHHHHHHHTCCS
T ss_pred             HHHHHHHHHHhh
Confidence            999999886543

>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=3.3e-31  Score=188.16  Aligned_cols=168  Identities=22%  Similarity=0.336  Sum_probs=132.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCc--CCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-ccccccccccCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNK--FSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-FQSLGSAFYRGAD   86 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d   86 (210)
                      ...+||+++|++|+|||||+++|++..  +...+ ++++.++....+.+++..+.+.+|||+|... ...+...+++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            457999999999999999999999633  33332 3355566667778899989999999999765 4456677788899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.+|+.+..|+..+......   .++|+++|+||+|+.+.  +.+..+++..++...+ .+++++||++|
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~---~~~piilV~NK~Dl~~~--r~v~~~~~~~~a~~~~-~~~~e~SA~~g  156 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQT---EDIPIILVGNKSDLVRX--REVSVSEGRAXAVVFD-XKFIETSAAVQ  156 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTT---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTT
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCeEEEEEechhhhcc--ccccHHHHHHHHHHhC-CceEEeccccC
Confidence            999999999999999999998877765321   26899999999998653  4556677777777776 78999999999


Q ss_pred             CChHHHHHHHHHHHHhcc
Q 028305          167 CNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~  184 (210)
                      .|++++|+++++.+....
T Consensus       157 ~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          157 HNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             BSHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhc
Confidence            999999999999986543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=100.00  E-value=3.7e-31  Score=188.68  Aligned_cols=175  Identities=21%  Similarity=0.329  Sum_probs=129.2

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG   84 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   84 (210)
                      .......++|+|+|++|+|||||+++|++..+.. .+.++.+...  ..+..  ..+.+.+|||||++.+...+..+++.
T Consensus        11 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~   86 (199)
T 4bas_A           11 MGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFEK--GRVAFTVFDMGGAKKFRGLWETYYDN   86 (199)
T ss_dssp             -----CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEEE--TTEEEEEEEECCSGGGGGGGGGGCTT
T ss_pred             ccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEEe--CCEEEEEEECCCCHhHHHHHHHHHhc
Confidence            3456789999999999999999999999988876 6667766433  33333  44789999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCC----CCCCCCCEEEEEecCCCCCCCCcccchHHH-HHHH-HHcCCCcE
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADP----GEHEACPFVLLGNKIDTDGGSSRVVPQKKA-LEWC-AYRGNIPY  158 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~----~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~-~~~~-~~~~~~~~  158 (210)
                      +|++|+|||++++.++..+..|+..+......    ....++|+++|+||+|+.+........+.. .... +.. ...+
T Consensus        87 ~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~  165 (199)
T 4bas_A           87 IDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDH-PFVI  165 (199)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTS-CEEE
T ss_pred             CCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCC-eeEE
Confidence            99999999999999999999888887654110    001267999999999997652211111111 1111 223 4789


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++||++|.|++++|++|.+.+.+...
T Consensus       166 ~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          166 FASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             EECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             EEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999987755

>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=2.6e-31  Score=188.03  Aligned_cols=164  Identities=25%  Similarity=0.404  Sum_probs=127.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.++.+...+.++.+.++..  +...  .+.+.+|||||++++...+..+++.+|++
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   94 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAI   94 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEeC--CEEEEEEECCCCHhHHHHHHHHHccCCEE
Confidence            3568999999999999999999999988876777777666543  3333  47899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAK  164 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~  164 (210)
                      ++|||++++.++..+..|+..+.....   ..++|+++|+||+|+.+..    ..++.......    .....++++||+
T Consensus        95 i~v~D~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~SA~  167 (188)
T 1zd9_A           95 VYMVDAADQEKIEASKNELHNLLDKPQ---LQGIPVLVLGNKRDLPGAL----DEKELIEKMNLSAIQDREICCYSISCK  167 (188)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGG---GTTCCEEEEEECTTSTTCC----CHHHHHHHTTGGGCCSSCEEEEECCTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhCcc---cCCCCEEEEEECCCCccCC----CHHHHHHHhChhhhccCCeeEEEEECC
Confidence            999999999999999888887765321   1278999999999997542    11222111111    123579999999


Q ss_pred             CCCChHHHHHHHHHHHHhc
Q 028305          165 EDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~  183 (210)
                      +|.|++++|++|.+.+.+.
T Consensus       168 ~g~gv~~l~~~l~~~~~~~  186 (188)
T 1zd9_A          168 EKDNIDITLQWLIQHSKSR  186 (188)
T ss_dssp             TCTTHHHHHHHHHHTCC--
T ss_pred             CCCCHHHHHHHHHHHHHhh
Confidence            9999999999999876543

>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=1.3e-30  Score=181.50  Aligned_cols=165  Identities=19%  Similarity=0.323  Sum_probs=125.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+|+|++|+|||||+++|.++.+. .+.++.+..  ...+.+++  ..+.+|||||++.+...+..+++.+|+++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFN--VETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEE--EEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccc--eEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            45799999999999999999999988875 344555433  34455553  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc-cchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV-VPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      +|+|++++.++.....|+..+.....   ..++|+++|+||+|+.+..... .........+...+ .+++++||++|.|
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  155 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEE---LRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRK-WQIFKTSATKGTG  155 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSC-EEEEECCTTTCTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchh---hCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCc-eEEEECcCCCCcC
Confidence            99999999999998888877765321   1278999999999997642111 11111111112223 5799999999999


Q ss_pred             hHHHHHHHHHHHHhc
Q 028305          169 IDEAFLCVAEIALKN  183 (210)
Q Consensus       169 v~~~~~~l~~~~~~~  183 (210)
                      ++++|++|.+.+.+.
T Consensus       156 i~~l~~~l~~~i~~~  170 (171)
T 1upt_A          156 LDEAMEWLVETLKSR  170 (171)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999999988654

>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=99.97  E-value=1e-29  Score=181.46  Aligned_cols=169  Identities=38%  Similarity=0.677  Sum_probs=144.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+......++..+++++
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            45799999999999999999999999888777788878888888889999899999999999998888888889999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|+|+.+..++..+..|+..+......    +.|+++|+||+|+.+.  +....++++.++...+ +.++++||+++.|+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~i~~v~nK~Dl~~~--~~~~~~~a~~l~~~~~-~~~~d~Sal~~~~i  155 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADS----NIVIMLVGNKSDLRHL--RAVPTDEARAFAEKNN-LSFIETSALDSTNV  155 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCC----CCeEEEEEECcccccc--cCcCHHHHHHHHHHcC-CeEEEEeCCCCCCH
Confidence            999999999999888888877654322    6799999999999654  4455677888888777 88999999999999


Q ss_pred             HHHHHHHHHHHHhccc
Q 028305          170 DEAFLCVAEIALKNEH  185 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~  185 (210)
                      +++|++|.+.+.+...
T Consensus       156 ~~l~~~l~~~~~~~~~  171 (199)
T 2f9l_A          156 EEAFKNILTEIYRIVS  171 (199)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999987654

>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=182.85  Aligned_cols=162  Identities=18%  Similarity=0.264  Sum_probs=127.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||+++|.++. ...+.++.+..  ...+..++  ..+.+|||||++++...+..+++.+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            578999999999999999999999877 55566666533  34444554  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~  165 (210)
                      +|+|++++.+++.+..|+..+.....   ..++|+++|+||+|+.+..    ..++.......    ....+++++||++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  163 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEER---LAGATLLIFANKQDLPGAL----SCNAIQEALELDSIRSHHWRIQGCSAVT  163 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCC----CHHHHHHHTTGGGCCSSCEEEEECCTTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChh---cCCCcEEEEEeCccCCCCC----CHHHHHHHhChhhccCCceEEEEeeCCC
Confidence            99999999999999888887765421   1268999999999997542    12233222211    1236799999999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.
T Consensus       164 ~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          164 GEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             CTTHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhc
Confidence            999999999999988654

>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=7.4e-31  Score=185.53  Aligned_cols=165  Identities=17%  Similarity=0.277  Sum_probs=124.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +...++|+|+|++|+|||||+++|.++.+. .+.++.+..  ...+.+++  +.+.+|||||++++...+..+++.+|++
T Consensus        13 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   87 (187)
T 1zj6_A           13 NHQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFV   87 (187)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEE
Confidence            356899999999999999999999988776 455555433  33444554  7899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAK  164 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~  164 (210)
                      ++|+|++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.    ...+++......    .....++++||+
T Consensus        88 i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~~----~~~~~i~~~~~~~~~~~~~~~~~~~Sa~  160 (187)
T 1zj6_A           88 IVVVDSTDRERISVTREELYKMLAHED---LRKAGLLIFANKQDVKEC----MTVAEISQFLKLTSIKDHQWHIQACCAL  160 (187)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHHTSGG---GTTCEEEEEEECTTSTTC----CCHHHHHHHHTGGGCCSSCEEEEECBTT
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhchh---hCCCeEEEEEECCCCcCC----CCHHHHHHHhChhhhcCCCcEEEEccCC
Confidence            999999999999999999888875421   127899999999999753    223333333321    123589999999


Q ss_pred             CCCChHHHHHHHHHHHHhccc
Q 028305          165 EDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +|.|++++|++|++.+.....
T Consensus       161 ~g~gi~~l~~~l~~~~~~~~~  181 (187)
T 1zj6_A          161 TGEGLCQGLEWMMSRLKIRLE  181 (187)
T ss_dssp             TTBTHHHHHHHHHHHHCC---
T ss_pred             CCcCHHHHHHHHHHHHHHHhh
Confidence            999999999999998866544

>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=3.9e-30  Score=182.29  Aligned_cols=158  Identities=20%  Similarity=0.321  Sum_probs=125.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.++|+++|++|+|||||+++|.++.+. .+.++.+..  ...+.+++  +.+.+|||||++.+...+..+++.+|+++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            45679999999999999999999988775 344555443  45566666  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-----------CCCcE
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-----------GNIPY  158 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-----------~~~~~  158 (210)
                      +|||++++.+++.+..|+..+.....   ..++|+++|+||+|+.+    ....+++.+.+...           ...++
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAE---LKDVPFVILGNKIDAPN----AVSEAELRSALGLLNTTGSQRIEGQRPVEV  168 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGG---GTTCCEEEEEECTTSTT----CCCHHHHHHHTTCSSCCC---CCSSCCEEE
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchh---hcCCCEEEEEECCCCcC----CCCHHHHHHHhCCccccccccccccceEEE
Confidence            99999999999999999888865321   12789999999999975    23445555544321           23679


Q ss_pred             EEecCCCCCChHHHHHHHHHH
Q 028305          159 FETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +++||++|.|++++|++|.+.
T Consensus       169 ~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          169 FMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEeECCcCCCHHHHHHHHHhh
Confidence            999999999999999999753

>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=1.1e-30  Score=185.48  Aligned_cols=163  Identities=15%  Similarity=0.306  Sum_probs=120.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.++.+. .+.++.+  +....+...+  +.+.+|||||++.+...+..+++.+|+
T Consensus        25 ~~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~--~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~   99 (192)
T 2b6h_A           25 FGKKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQG   99 (192)
T ss_dssp             TTTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETT--EEEEEEEETT--EEEEEEECC-----CTTHHHHHHTCCE
T ss_pred             ccCCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCc--eeEEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCE
Confidence            3567899999999999999999999987775 3344444  3334444444  789999999999999998899999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSA  163 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa  163 (210)
                      +++|||++++.++..+..|+..+.....   ..++|+++|+||+|+.+..    ..+++......    ....+++++||
T Consensus       100 iilv~D~~~~~s~~~~~~~l~~~~~~~~---~~~~piilv~NK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~~SA  172 (192)
T 2b6h_A          100 LIFVVDSNDRERVQESADELQKMLQEDE---LRDAVLLVFANKQDMPNAM----PVSELTDKLGLQHLRSRTWYVQATCA  172 (192)
T ss_dssp             EEEEEETTCGGGHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCC----CHHHHHHHTTGGGCSSCCEEEEECBT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHhcccc---cCCCeEEEEEECCCCCCCC----CHHHHHHHhCcccccCCceEEEECcC
Confidence            9999999999999999888887765321   1268999999999997542    11222211110    11256999999


Q ss_pred             CCCCChHHHHHHHHHHHHh
Q 028305          164 KEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++|.|++++|++|.+.+.+
T Consensus       173 ~~g~gi~~l~~~l~~~i~~  191 (192)
T 2b6h_A          173 TQGTGLYDGLDWLSHELSK  191 (192)
T ss_dssp             TTTBTHHHHHHHHHHHTTT
T ss_pred             CCcCCHHHHHHHHHHHHhc
Confidence            9999999999999987743

>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=1.8e-30  Score=185.18  Aligned_cols=158  Identities=18%  Similarity=0.299  Sum_probs=120.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.++|+++|++|+|||||+++|.++.+. .+.++.+..  ...+.+++  +.+.+|||||++.+...+..+++.+|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            45689999999999999999999987764 344454433  34555666  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----------------
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----------------  153 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----------------  153 (210)
                      +|+|++++.++..+..|+..+.....   ..++|+++|+||+|+.+    ....+++..++...                
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDET---IANVPILILGNKIDRPE----AISEERLREMFGLYGQTTGKGSVSLKELNA  170 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGG---GTTSCEEEEEECTTSTT----CCCHHHHHHHHTCTTTCCCSSCCCTTTCCS
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcc---cCCCcEEEEEECCCccc----cCCHHHHHHHhCcccccccccccccccccC
Confidence            99999999999999999888865421   12789999999999974    34456666655421                


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      ....++++||++|.|++++|++|.+.
T Consensus       171 ~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          171 RPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             CCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHHh
Confidence            23679999999999999999999764

>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=6.2e-30  Score=181.21  Aligned_cols=165  Identities=19%  Similarity=0.318  Sum_probs=127.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc-CCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK-FSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ....++|+|+|++|+|||||+++|.+.. +...+.++.+  .....+.+++  +.+.+|||||++.+...+..+++.+|+
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~   93 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQA   93 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCE
Confidence            3568999999999999999999999877 4555555555  3445555554  689999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH--Hc--CCCcEEEecC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA--YR--GNIPYFETSA  163 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~Sa  163 (210)
                      +++|+|++++.++..+..|+..+...... ...++|+++|+||+|+.+.    ...+++...+.  ..  ....++++||
T Consensus        94 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Sa  168 (190)
T 2h57_A           94 IIFVIDSSDRLRMVVAKEELDTLLNHPDI-KHRRIPILFFANKMDLRDA----VTSVKVSQLLCLENIKDKPWHICASDA  168 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHSTTT-TTSCCCEEEEEECTTSTTC----CCHHHHHHHHTGGGCCSSCEEEEECBT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhh-ccCCCeEEEEEeCcCcccC----CCHHHHHHHhChhhccCCceEEEEccC
Confidence            99999999999999998888888765321 0127899999999999753    23344544442  11  1368999999


Q ss_pred             CCCCChHHHHHHHHHHHHh
Q 028305          164 KEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++|.|++++|++|.+.+.+
T Consensus       169 ~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          169 IKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             TTTBTHHHHHHHHHHHC--
T ss_pred             CCCcCHHHHHHHHHHHHHH
Confidence            9999999999999987643

>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=7.3e-31  Score=181.58  Aligned_cols=158  Identities=15%  Similarity=0.265  Sum_probs=120.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+++|++|+|||||+++|.++.+.. +.++.+.  ....+...  .+.+.+|||||++.+...+..+++.+|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEECS--SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEEC--CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999877763 4455542  23333443  478999999999999988888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCCCCC
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKEDCN  168 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~  168 (210)
                      |++++.++..+..|+..+.....   ..++|+++|+||+|+.+..    ..++.......    ....+++++||++|.|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  148 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDE---LRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRHRNWYIQATCATSGDG  148 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCC----CHHHHHHHTTGGGCSSCCEEEEECBTTTTBT
T ss_pred             ECCCHHHHHHHHHHHHHHHhchh---hcCCeEEEEEECcCCcCCC----CHHHHHHHhCcccccCccEEEEEcccCCCcC
Confidence            99999999999888887765321   1267999999999997542    11222111110    0125699999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 028305          169 IDEAFLCVAEIALK  182 (210)
Q Consensus       169 v~~~~~~l~~~~~~  182 (210)
                      ++++|++|.+.+.+
T Consensus       149 i~~l~~~l~~~i~~  162 (164)
T 1r8s_A          149 LYEGLDWLSNQLRN  162 (164)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>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=9.7e-31  Score=184.06  Aligned_cols=162  Identities=21%  Similarity=0.317  Sum_probs=122.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||+++|.+..+. .+.++.+.  ....+..++  +.+.+|||||++.+...+..+++.+|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~--~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGF--NIKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTE--EEEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCe--EEEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            56899999999999999999999987553 34444443  334445554  78999999999999888899999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~  165 (210)
                      +|||++++.+++.+..|+..+....   ...++|+++|+||+|+.+..    ..+++......    ....+++++||++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~piilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  161 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEE---KLSCVPVLIFANKQDLLTAA----PASEIAEGLNLHTIRDRVWQIQSCSALT  161 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCG---GGTTCCEEEEEECTTSTTCC----CHHHHHHHTTGGGCCSSCEEEEECCTTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhCh---hhcCCCEEEEEECcCcccCC----CHHHHHHHhCchhccCCceEEEEccCCC
Confidence            9999999999999888887765421   11278999999999997542    12222222111    1135799999999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.
T Consensus       162 g~gi~~l~~~l~~~~~~~  179 (181)
T 1fzq_A          162 GEGVQDGMNWVCKNVNAK  179 (181)
T ss_dssp             CTTHHHHHHHHHHTC---
T ss_pred             CCCHHHHHHHHHHHHHhc
Confidence            999999999999877543

>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=3.6e-31  Score=186.73  Aligned_cols=167  Identities=24%  Similarity=0.422  Sum_probs=121.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC--cCCCcccceeeeEEEEEEEEe---CCeEEEEEEEeCCCcccccccccccccCCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN--KFSQQYKATIGADFVTKELQM---DDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      .+||+|+|++|||||||+++|.+.  .+...+.++.+.++....+..   ++..+.+.+|||+|++++......+++.++
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            479999999999999999999974  455556677777766555443   335678999999999999888888899999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc---hHHHHHHHHHcCCCc----E
Q 028305           87 CCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP---QKKALEWCAYRGNIP----Y  158 (210)
Q Consensus        87 ~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~---~~~~~~~~~~~~~~~----~  158 (210)
                      ++++|||++++ .+++.+..|+..+.....     ++|+++|+||+|+.+.  +...   .+....+++..+ .+    +
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~-----~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~  153 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARAS-----SSPVILVGTHLDVSDE--KQRKACMSKITKELLNKRG-FPAIRDY  153 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCT-----TCEEEEEEECGGGCCH--HHHHHHHHHHHHHTTTCTT-SCEEEEE
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCC-----CCcEEEEEECCCcccc--hhhHHHHHHHHHHHHHhcC-Ccchhhe
Confidence            99999999997 578999999988876542     6799999999998653  2221   233445554455 44    9


Q ss_pred             EEecCCCCC-ChHHHHHHHHHHHHhcccc
Q 028305          159 FETSAKEDC-NIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       159 ~~~Sa~~~~-~v~~~~~~l~~~~~~~~~~  186 (210)
                      +++||++|. +++++++.+.+.+.+...+
T Consensus       154 ~~~Sa~~~~~~~~~l~~~i~~~~~~~~~~  182 (184)
T 2zej_A          154 HFVNATEESDALAKLRKTIINESLNFKIR  182 (184)
T ss_dssp             EECCTTSCCHHHHHHHHHHHHHHHCC---
T ss_pred             EEEecccCchhHHHHHHHHHHHHhccccC
Confidence            999999997 9999999999988776554

>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=4.9e-29  Score=176.77  Aligned_cols=165  Identities=39%  Similarity=0.697  Sum_probs=144.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..++|+|+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+++...+..+++.++++
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~  105 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGA  105 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEE
Confidence            35679999999999999999999999988878888888888888899999889999999999998888888888999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|+|+.+..+++.+..|+..+......    +.|+++++||+|+.+.  +....++++.++...+ +.++++|++++.|
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~i~~v~nK~Dl~~~--~~~~~~~a~~l~~~~~-~~~ld~Sald~~~  178 (191)
T 1oix_A          106 LLVYDIAKHLTYENVERWLKELRDHADS----NIVIMLVGNKSDLRHL--RAVPTDEARAFAEKNG-LSFIETSALDSTN  178 (191)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCC----CCcEEEEEECcccccc--cccCHHHHHHHHHHcC-CEEEEEeCCCCCC
Confidence            9999999999999888888777654322    6799999999999653  4455677888888777 8999999999999


Q ss_pred             hHHHHHHHHHHH
Q 028305          169 IDEAFLCVAEIA  180 (210)
Q Consensus       169 v~~~~~~l~~~~  180 (210)
                      ++++|+.|.+.+
T Consensus       179 v~~l~~~l~~~i  190 (191)
T 1oix_A          179 VEAAFQTILTEI  190 (191)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>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=1.4e-30  Score=183.24  Aligned_cols=160  Identities=18%  Similarity=0.302  Sum_probs=122.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      .....++|+|+|++|+|||||+++|.++.+ ..+.++.+...  ..+.+++  +.+.+|||||++++...+..+++.+|+
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEF   91 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCE
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCE
Confidence            345789999999999999999999998877 34445554333  3344554  789999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH----cCCCcEEEecC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY----RGNIPYFETSA  163 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa  163 (210)
                      +++|+|++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.    ...+++......    .....++++||
T Consensus        92 ii~v~D~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~NK~Dl~~~----~~~~~i~~~~~~~~~~~~~~~~~~~Sa  164 (181)
T 2h17_A           92 VIVVVDSTDRERISVTREELYKMLAHED---LRKAGLLIFANKQDVKEC----MTVAEISQFLKLTSIKDHQWHIQACCA  164 (181)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTC----CCHHHHHHHTTGGGCCSSCEEEEECBT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChh---hCCCeEEEEEECCCcccC----CCHHHHHHHhCcccccCCceEEEEccC
Confidence            9999999999999999888888765321   127899999999999753    222333332211    11257999999


Q ss_pred             CCCCChHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEI  179 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~  179 (210)
                      ++|.|++++|++|.+.
T Consensus       165 ~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          165 LTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             TTTBTHHHHHHHHHTC
T ss_pred             CCCcCHHHHHHHHHhh
Confidence            9999999999999764

>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=2.5e-29  Score=192.60  Aligned_cols=167  Identities=26%  Similarity=0.490  Sum_probs=143.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||+++|.++.+...+.++++..+ ...+..++..+.+.+|||||++.+......+++.+|+++
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i  231 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  231 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEE
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEE
Confidence            4579999999999999999999999888777777665444 556678888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcE
Q 028305           90 LVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      +|||++++.++..+. .|+..+.....     ++|+++|+||+|+.+..          .+.+..+++..+++..+..++
T Consensus       232 ~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  306 (332)
T 2wkq_A          232 ICFSLVSPASFHHVRAKWYPEVRHHCP-----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  306 (332)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCT-----TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhhCC-----CCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEE
Confidence            999999999999987 67777776543     78999999999986531          145667888889988885599


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHh
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +++||++|.|++++|+.|.+.++.
T Consensus       307 ~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          307 LECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEecCCCCcCHHHHHHHHHHHHhc
Confidence            999999999999999999998864

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=4.2e-30  Score=181.91  Aligned_cols=162  Identities=18%  Similarity=0.301  Sum_probs=125.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..++|+|+|++|+|||||+++|..+.+.. +.++.+..  ...+..++  ..+.+|||||++.+...+..+++.+|+++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~~--~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGVN--LETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTCC--EEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCceE--EEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            578999999999999999999998777653 44444432  33444443  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH-----HHcCCCcEEEecCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC-----AYRGNIPYFETSAK  164 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~  164 (210)
                      +|+|++++.++.....|+..+.....   ..++|+++|+||+|+.+...    .+++....     ... ..+++++||+
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~-~~~~~~~Sa~  166 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDE---LRKSLLLIFANKQDLPDAAS----EAEIAEQLGVSSIMNR-TWTIVKSSSK  166 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCST---TTTCEEEEEEECTTSTTCCC----HHHHHHHTTGGGCCSS-CEEEEECCTT
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhh---cCCCeEEEEEECCCCcCCCC----HHHHHHHhChhhccCC-ceEEEEccCC
Confidence            99999999999998888877765321   23789999999999975421    12222111     112 2579999999


Q ss_pred             CCCChHHHHHHHHHHHHhcc
Q 028305          165 EDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +|.|++++|++|.+.+.+..
T Consensus       167 ~~~gi~~l~~~l~~~i~~~~  186 (189)
T 2x77_A          167 TGDGLVEGMDWLVERLREQG  186 (189)
T ss_dssp             TCTTHHHHHHHHHHHHHHTC
T ss_pred             CccCHHHHHHHHHHHHHhcc
Confidence            99999999999999987653

>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=1.2e-32  Score=197.39  Aligned_cols=169  Identities=27%  Similarity=0.490  Sum_probs=137.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ......++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+|||||++++...+..+++.+|
T Consensus        25 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (204)
T 3th5_A           25 YFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTD  103 (204)
Confidence            3446789999999999999999999998888766666664433 445566777788999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC----------cccchHHHHHHHHHcCC
Q 028305           87 CCVLVYDVNVQKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS----------RVVPQKKALEWCAYRGN  155 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~----------~~~~~~~~~~~~~~~~~  155 (210)
                      ++++|||++++.+++.+. .|+..+.....     ++|+++|+||+|+.+...          +....+++..+++..+.
T Consensus       104 ~iilv~D~~~~~s~~~~~~~~~~~l~~~~~-----~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  178 (204)
T 3th5_A          104 VFLICFSLVSPASFENVRAKWYPEVRHHCP-----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGA  178 (204)
Confidence            999999999999999886 67777665432     679999999999965321          14555677777777774


Q ss_pred             CcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          156 IPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       156 ~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .+++++||++|.|++++|++|.+.++
T Consensus       179 ~~~~~vSA~~g~gi~~l~~~l~~~il  204 (204)
T 3th5_A          179 VKYLECSALTQRGLKTVFDEAIRAVL  204 (204)
Confidence            48999999999999999999988653

>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=2.1e-30  Score=182.39  Aligned_cols=162  Identities=18%  Similarity=0.338  Sum_probs=122.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+++|++|+|||||+++|.++.+ ..+.++.+..  ...+.+++  ..+.+|||||++.+...+..+++.+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            6789999999999999999999997776 3444555433  33444554  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~  165 (210)
                      +|+|++++.+++.+..|+..+.....   ..++|+++|+||+|+.+.    ...+++.......    ...+++++||++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~piilv~nK~Dl~~~----~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~  163 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEE---LQDAALLVFANKQDQPGA----LSASEVSKELNLVELKDRSWSIVASSAIK  163 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSST---TSSCEEEEEEECTTSTTC----CCHHHHHHHTTTTTCCSSCEEEEEEBGGG
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChh---hCCCeEEEEEECCCCCCC----CCHHHHHHHhCcccccCCceEEEEccCCC
Confidence            99999999999998888877765321   237899999999999753    2223333322211    124799999999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.
T Consensus       164 ~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          164 GEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhc
Confidence            999999999999988764

>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=5.4e-30  Score=182.43  Aligned_cols=166  Identities=19%  Similarity=0.240  Sum_probs=120.3

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccc---cccc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLG---SAFY   82 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~---~~~~   82 (210)
                      ......+||+|+|++|||||||++++.+. +......+...........+ ++..+.+.+|||+|++.+....   ..++
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   93 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIF   93 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHSC-CCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHH
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHhc-CCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhccccc
Confidence            44567899999999999999999987764 33222222222111222223 2556889999999999987777   7899


Q ss_pred             cCCcEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC-----CcccchHHHHHHHH----
Q 028305           83 RGADCCVLVYDVNVQ--KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS-----SRVVPQKKALEWCA----  151 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~--~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~-----~~~~~~~~~~~~~~----  151 (210)
                      +.+|++|+|||++++  +++..+..|+..+.....     ++|+++|+||+|+.+..     .+.+..++...+++    
T Consensus        94 ~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~-----~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~  168 (196)
T 3llu_A           94 RGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNP-----DMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLE  168 (196)
T ss_dssp             HTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCT-----TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCT
T ss_pred             ccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCC-----CCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhh
Confidence            999999999999997  666777777776644333     78999999999986531     13455556677777    


Q ss_pred             HcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          152 YRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       152 ~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ..+ +.++++||++ .|++++|+.+++.+
T Consensus       169 ~~~-~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          169 KLH-LSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             TSC-EEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             cCC-cceEEEEech-hhHHHHHHHHHHHh
Confidence            445 7899999999 99999999999865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.96  E-value=7.6e-29  Score=173.62  Aligned_cols=163  Identities=17%  Similarity=0.211  Sum_probs=121.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+.+.....+..++  ..+.+|||||++.+...+..++..+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   82 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDIV   82 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCEE
Confidence            45688999999999999999999999888766666665555555566666  4578999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcC--------CCcEEE
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRG--------NIPYFE  160 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~  160 (210)
                      ++|+|++++....... ++..+..       .++|+++|+||+|+.+..     .++.........        ..++++
T Consensus        83 i~v~d~~~~~~~~~~~-~l~~~~~-------~~~p~ilv~nK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (178)
T 2lkc_A           83 ILVVAADDGVMPQTVE-AINHAKA-------ANVPIIVAINKMDKPEAN-----PDRVMQELMEYNLVPEEWGGDTIFCK  149 (178)
T ss_dssp             EEEEETTCCCCHHHHH-HHHHHGG-------GSCCEEEEEETTTSSCSC-----HHHHHHHHTTTTCCBTTTTSSEEEEE
T ss_pred             EEEEECCCCCcHHHHH-HHHHHHh-------CCCCEEEEEECccCCcCC-----HHHHHHHHHhcCcChhHcCCcccEEE
Confidence            9999998843222221 1122211       167999999999997531     122222222222        147999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      +||++|.|++++|++|.+.+...+.+
T Consensus       150 ~Sa~~~~gv~~l~~~l~~~~~~~~~~  175 (178)
T 2lkc_A          150 LSAKTKEGLDHLLEMILLVSEMEELK  175 (178)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHHTTTT
T ss_pred             EecCCCCCHHHHHHHHHHhhhhhccc
Confidence            99999999999999999998877653

>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=99.96  E-value=1.2e-28  Score=177.73  Aligned_cols=167  Identities=19%  Similarity=0.232  Sum_probs=115.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe-EEEEEEEeCCCcccccc-cccccccCCc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK-LVTLQIWDTAGQERFQS-LGSAFYRGAD   86 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~-~~~~~~~~~d   86 (210)
                      +...++|+|+|++|+|||||+++|+++.+...+.+ ++.+...  +.+++. .+.+.+|||||++.+.. .+..+++.+|
T Consensus         4 ~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   80 (214)
T 2fh5_B            4 KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSAR   80 (214)
T ss_dssp             ----CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCC
Confidence            45689999999999999999999999888766543 3334433  555543 57899999999999887 7788899999


Q ss_pred             EEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH--------------
Q 028305           87 CCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA--------------  151 (210)
Q Consensus        87 ~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~--------------  151 (210)
                      ++++|||+++.. ++.....++..+..... ....++|+++|+||+|+.+........+.+.....              
T Consensus        81 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~  159 (214)
T 2fh5_B           81 AVVFVVDSAAFQREVKDVAEFLYQVLIDSM-ALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLD  159 (214)
T ss_dssp             EEEEEEETTTHHHHHHHHHHHHHHHHHHHH-TSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC-------
T ss_pred             EEEEEEECCCcCHHHHHHHHHHHHHHhhhh-hcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhcccccc
Confidence            999999999854 45555554444433210 01126799999999999765333222222222222              


Q ss_pred             -------HcC-------------CCcEEEecCCCC------CChHHHHHHHHHH
Q 028305          152 -------YRG-------------NIPYFETSAKED------CNIDEAFLCVAEI  179 (210)
Q Consensus       152 -------~~~-------------~~~~~~~Sa~~~------~~v~~~~~~l~~~  179 (210)
                             ..+             .+.|+++||++|      .|++++|++|.+.
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          160 SSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             -----CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             CCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                   011             467999999999      9999999999875

>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=187.70  Aligned_cols=167  Identities=23%  Similarity=0.336  Sum_probs=122.8

Q ss_pred             ccccceEEEEEEcCC---------CCcHHHHHHHHhh---CcCCCccccee-eeEEEEEE--------------EEeCCe
Q 028305            7 MKRRNLLKVIVLGDS---------GVGKTSLMNQYVY---NKFSQQYKATI-GADFVTKE--------------LQMDDK   59 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~---------~~GKSsli~~l~~---~~~~~~~~~~~-~~~~~~~~--------------~~~~~~   59 (210)
                      +.....+||+|+|.+         |||||||+++|++   ..+...+.+++ +.++....              ..+++.
T Consensus        14 ~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   93 (255)
T 3c5h_A           14 LYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCV   93 (255)
T ss_dssp             SSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC-------
T ss_pred             CCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCc
Confidence            445678999999999         9999999999998   55555555554 33222111              124567


Q ss_pred             EEEEEEEe-----------------------CCCccccccccccccc---------------------CCcEEEEEEECC
Q 028305           60 LVTLQIWD-----------------------TAGQERFQSLGSAFYR---------------------GADCCVLVYDVN   95 (210)
Q Consensus        60 ~~~~~i~D-----------------------~~g~~~~~~~~~~~~~---------------------~~d~vi~v~d~~   95 (210)
                      .+.+.+||                       ++|++.+..++..+++                     ++|++|+|||++
T Consensus        94 ~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t  173 (255)
T 3c5h_A           94 ECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVS  173 (255)
T ss_dssp             --CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECB
T ss_pred             EEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECC
Confidence            78899999                       6677777777777776                     799999999999


Q ss_pred             Ch--hhHHHHHHHHHHHHHh-cCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           96 VQ--KTFESLQNWREEFLKQ-ADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        96 ~~--~s~~~~~~~~~~l~~~-~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      ++  .+++.+..|+..+... ...    ++|+++|+||+|+.+.  +.+  ++...++......+++++||++|.|++++
T Consensus       174 ~~~~~s~~~~~~~l~~i~~~~~~~----~~piilV~NK~Dl~~~--~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~el  245 (255)
T 3c5h_A          174 RGMNRNFDDQLKFVSNLYNQLAKT----KKPIVVVLTKCDEGVE--RYI--RDAHTFALSKKNLQVVETSARSNVNVDLA  245 (255)
T ss_dssp             C----CHHHHHHHHHHHHHHHHHT----TCCEEEEEECGGGBCH--HHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHH
T ss_pred             CCchhhHHHHHHHHHHHHHHhccC----CCCEEEEEEccccccc--HHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHH
Confidence            98  9999999999888765 222    6899999999998643  222  56777777643489999999999999999


Q ss_pred             HHHHHHHHH
Q 028305          173 FLCVAEIAL  181 (210)
Q Consensus       173 ~~~l~~~~~  181 (210)
                      |++|.+.+.
T Consensus       246 f~~l~~~l~  254 (255)
T 3c5h_A          246 FSTLVQLID  254 (255)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999998764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.96  E-value=1.1e-28  Score=186.94  Aligned_cols=166  Identities=20%  Similarity=0.271  Sum_probs=128.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc-----cccccccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF-----QSLGSAFY   82 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~~~~~~   82 (210)
                      ..+||+++|++|+|||||+++|+++...   ..+.++.+..  .....+++ .+.+.+|||||++.+     ......++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~--~~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVE--HSHLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEE--EEEEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceE--EEEEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999977332   1233444433  34444544 588999999999988     67778888


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----cchHHHHHHHHHcC--CC
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----VPQKKALEWCAYRG--NI  156 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----~~~~~~~~~~~~~~--~~  156 (210)
                      +.+|++|+|||++++.+++.+..|...+......  ..++|+++|+||+|+.+...+.    ...+++..++...+  ..
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~--~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~  156 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKY--SPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNL  156 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSC
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHh--CCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCe
Confidence            9999999999999999999987775544432211  1178999999999997632344    56678888998887  37


Q ss_pred             cEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          157 PYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       157 ~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +++++||++ .++.++|..+++.+..
T Consensus       157 ~~~~tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          157 IGFPTSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             EEEECCTTS-SHHHHHHHHHHHTTCS
T ss_pred             EEEEeeecC-ChHHHHHHHHHHHHcC
Confidence            999999999 8999999998876543

>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=2.2e-28  Score=169.46  Aligned_cols=153  Identities=13%  Similarity=0.158  Sum_probs=112.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc------cccccccc--
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ------SLGSAFYR--   83 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~--   83 (210)
                      .++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||+..+.      .....+++  
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            58999999999999999999998776555555555555555566665  579999999988764      22344554  


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|++++|+|+++.+.   ...|+..+...       ++|+++|+||+|+...  +... .+...+++..+ .+++++||
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~~-------~~p~ilv~nK~Dl~~~--~~~~-~~~~~~~~~~~-~~~~~~SA  146 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLMEM-------GANLLLALNKMDLAKS--LGIE-IDVDKLEKILG-VKVVPLSA  146 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHHT-------TCCEEEEEECHHHHHH--TTCC-CCHHHHHHHHT-SCEEECBG
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHhc-------CCCEEEEEEchHhccc--cChh-hHHHHHHHHhC-CCEEEEEc
Confidence            7999999999988543   34566665442       6799999999998542  1122 23566777777 79999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~  180 (210)
                      ++|.|++++|+++.+.+
T Consensus       147 ~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          147 AKKMGIEELKKAISIAV  163 (165)
T ss_dssp             GGTBSHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998764

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.96  E-value=8.8e-29  Score=188.94  Aligned_cols=162  Identities=14%  Similarity=0.285  Sum_probs=119.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ...++|+|+|++|+|||||+++|.+..+... .++.+...  ..+...+  +.+.+|||||++.+......+++.+|++|
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNV--ETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEE--EEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEE--EEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4568999999999999999999998876533 34444333  3344444  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc----CCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR----GNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~  165 (210)
                      +|||++++.++..+..|+..+.....   ..++|+++|+||+|+.+..    ..+++.......    ...+++++||++
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~---~~~~piilV~NK~Dl~~~~----~~~~i~~~~~~~~~~~~~~~~~~vSAk~  310 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDE---LRDAVLLVFANKQDLPNAM----NAAEITDKLGLHSLRHRNWYIQATCATS  310 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCC----CHHHHHHHHTCTTCCSSCEEEEECBTTT
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhc---cCCCeEEEEEECccCCccc----CHHHHHHHhchhhhhcCCCEEEEEECCC
Confidence            99999999999998888777754321   2278999999999997642    122222221111    125699999999


Q ss_pred             CCChHHHHHHHHHHHHhc
Q 028305          166 DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.
T Consensus       311 g~gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          311 GDGLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             TBTHHHHHHHHHHHHTC-
T ss_pred             CcCHHHHHHHHHHHHHhc
Confidence            999999999999987643

>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=99.95  E-value=1.7e-27  Score=173.43  Aligned_cols=167  Identities=16%  Similarity=0.083  Sum_probs=116.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc---------cccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF---------QSLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~   80 (210)
                      ...++|+|+|++|+|||||+++|++..+.....+..+.+.........+  ..+.+|||||+.+.         ......
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  104 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTITA  104 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHHH
Confidence            5689999999999999999999998876533333434444444444444  67999999998321         111233


Q ss_pred             cccCCcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccch---HHHHHHHHHcC-
Q 028305           81 FYRGADCCVLVYDVNVQKTFES--LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQ---KKALEWCAYRG-  154 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~---~~~~~~~~~~~-  154 (210)
                      ++..+|++|+|||++++.++..  ...|+..+....     .++|+++|+||+|+.+.  +....   +....++...+ 
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-----~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~  177 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-----SNKSIVIGFNKIDKCNM--DSLSIDNKLLIKQILDNVKN  177 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC------CCCEEEEEECGGGCC----CCCHHHHHHHHHHHHHCCS
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHhh-----cCCcEEEEEeCcccCCc--hhhHHHHHHHHHHHHHhcCC
Confidence            4677899999999999877642  234555554321     26799999999999764  22222   24555555443 


Q ss_pred             CCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          155 NIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       155 ~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ...++++||++|.|++++|++|.+.+.+.+.
T Consensus       178 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          178 PIKFSSFSTLTGVGVEQAKITACELLKNDQA  208 (228)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEecccCCCHHHHHHHHHHHHHHHHH
Confidence            2689999999999999999999999977654

>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=3e-28  Score=173.13  Aligned_cols=164  Identities=16%  Similarity=0.171  Sum_probs=109.1

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----------cccccc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----------QERFQS   76 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~   76 (210)
                      ++....++|+|+|++|+|||||+++|++..+.....++.+..........++   .+.+|||||          ++.+..
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~   94 (195)
T 1svi_A           18 YPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGR   94 (195)
T ss_dssp             SCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHH
Confidence            3455789999999999999999999998875544444443333333333333   489999999          666666


Q ss_pred             cccccccCC---cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc
Q 028305           77 LGSAFYRGA---DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR  153 (210)
Q Consensus        77 ~~~~~~~~~---d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~  153 (210)
                      ....+++.+   |++++|+|++++.++.... ++..+..       .++|+++|+||+|+.+........+++.......
T Consensus        95 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~-------~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~  166 (195)
T 1svi_A           95 MIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY-------YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNID  166 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH-------TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCC
T ss_pred             HHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH-------cCCCEEEEEECcccCChHHHHHHHHHHHHHHccc
Confidence            677777666   9999999999887766532 2222222       1679999999999976422222223343322223


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ...+++++||++|.|++++|++|.+.+.
T Consensus       167 ~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          167 PEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             TTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             CCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence            3478999999999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.95  E-value=1.7e-27  Score=169.06  Aligned_cols=161  Identities=18%  Similarity=0.221  Sum_probs=116.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----------ccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----------QERFQSL   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~   77 (210)
                      +....++|+|+|++|+|||||+++|++..+.. ..++.+..........+.   .+.+|||||          ++.+...
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           19 PPPLKGEVAFVGRSNVGKSSLLNALFNRKIAF-VSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCCTTCEEEEEEBTTSSHHHHHHHHHTSCCSC-CCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHcCcccc-ccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHH
Confidence            34567899999999999999999999877432 222222222222222222   478999999          5556666


Q ss_pred             ccccccCC---cEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           78 GSAFYRGA---DCCVLVYDVNVQKTFE--SLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        78 ~~~~~~~~---d~vi~v~d~~~~~s~~--~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      ...+++.+   |++++|+|.++..+..  .+..|....          ++|+++|+||+|+.+........+++..++..
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~----------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~  164 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL----------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSK  164 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT----------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHS
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc----------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhh
Confidence            66666555   9999999998764433  233343332          67999999999997654456666777788777


Q ss_pred             cCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          153 RGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       153 ~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      .+..+++++||++|.|++++|++|.+.+.+
T Consensus       165 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          165 YGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             SCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             cCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            666899999999999999999999988753

>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=99.95  E-value=1.2e-26  Score=175.69  Aligned_cols=168  Identities=18%  Similarity=0.123  Sum_probs=127.6

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc----------
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ----------   75 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----------   75 (210)
                      +...+.-.|+++|.+|+|||||+|+|++..+.. ...+.++........... ....+.+|||||+.+..          
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~-~~~~i~lvDTPG~~~~~~~~~l~~~~~   83 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIP-NEAQIIFLDTPGIYEPKKSDVLGHSMV   83 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET-TTEEEEEEECCCCCCCCTTCHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecC-CCCeEEEEECcCCCccccchhHHHHHH
Confidence            456778999999999999999999999888752 333344444444444444 13679999999986544          


Q ss_pred             ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-C
Q 028305           76 SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-G  154 (210)
Q Consensus        76 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-~  154 (210)
                      .....+++.+|++++|+|++++.+......|+..+...       ++|+++|+||+|+...  .....+....+.+.. .
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~-------~~pvilV~NK~Dl~~~--~~~~~~~~~~l~~~~~~  154 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL-------NKPVIVVINKIDKIGP--AKNVLPLIDEIHKKHPE  154 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG-------CCCEEEEEECGGGSSS--GGGGHHHHHHHHHHCTT
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc-------CCCEEEEEECccCCCC--HHHHHHHHHHHHHhccC
Confidence            44566788999999999999988888776666666542       6799999999999732  455566667777766 3


Q ss_pred             CCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          155 NIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       155 ~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ..+++++||++|.|++++|+.+.+.+....
T Consensus       155 ~~~i~~vSA~~g~gv~~L~~~l~~~l~~~~  184 (308)
T 3iev_A          155 LTEIVPISALKGANLDELVKTILKYLPEGE  184 (308)
T ss_dssp             CCCEEECBTTTTBSHHHHHHHHHHHSCBCC
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHhCccCC
Confidence            578999999999999999999999886543

>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=5.4e-27  Score=173.32  Aligned_cols=156  Identities=21%  Similarity=0.155  Sum_probs=119.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc------cccc-
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG------SAFY-   82 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~------~~~~-   82 (210)
                      ...++|+++|++|+|||||+++|++..+.....++.+.+.....+...+  ..+.+|||||+..+....      ..++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            4579999999999999999999998776655566666666666666555  679999999988765432      3444 


Q ss_pred             -cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           83 -RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        83 -~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                       ..+|++++|+|.++.++..   .|...+...       ++|+++|+||+|+....  ... .+...+++..+ ++++++
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~---~~~~~l~~~-------~~pvilv~NK~Dl~~~~--~i~-~~~~~l~~~lg-~~vi~~  146 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL---YLLLEILEM-------EKKVILAMTAIDEAKKT--GMK-IDRYELQKHLG-IPVVFT  146 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH---HHHHHHHTT-------TCCEEEEEECHHHHHHT--TCC-BCHHHHHHHHC-SCEEEC
T ss_pred             hcCCCEEEEEeCCCchhhHH---HHHHHHHhc-------CCCEEEEEECcCCCCcc--chH-HHHHHHHHHcC-CCEEEE
Confidence             5899999999999865433   355555432       68999999999985431  111 23666777777 899999


Q ss_pred             cCCCCCChHHHHHHHHHHHH
Q 028305          162 SAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ||++|.|++++|+++.+.+.
T Consensus       147 SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          147 SSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             EeeCCcCHHHHHHHHHHHhh
Confidence            99999999999999998765

>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=1e-27  Score=169.51  Aligned_cols=160  Identities=19%  Similarity=0.202  Sum_probs=116.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC-----------ccccccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG-----------QERFQSLGSAF   81 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~~~~   81 (210)
                      ++|+++|++|+|||||+++|.+..+...+.++.+.....  ....    .+.+|||||           ++.+......+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~~--~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIE--IEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCEE--EEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeEE--EecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            689999999999999999999988876666665443332  2233    589999999           56666666667


Q ss_pred             ccC-CcEEEEEEECCChhhHHHH-HHHHHH--------HHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH
Q 028305           82 YRG-ADCCVLVYDVNVQKTFESL-QNWREE--------FLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA  151 (210)
Q Consensus        82 ~~~-~d~vi~v~d~~~~~s~~~~-~~~~~~--------l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~  151 (210)
                      ++. ++++++++++.+..++..+ ..|...        +......   .++|+++|+||+|+...  .   .++...+++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~--~---~~~~~~~~~  147 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKN--V---QEVINFLAE  147 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSC--H---HHHHHHHHH
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHh---cCCceEEEeehHhccCc--H---HHHHHHHHH
Confidence            766 7777777777777777765 455432        2111110   16899999999999754  2   556777777


Q ss_pred             HcCCC------cEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          152 YRGNI------PYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       152 ~~~~~------~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      ..+..      .++++||++|.|++++|++|.+.+.+.+++
T Consensus       148 ~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  188 (190)
T 2cxx_A          148 KFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQGR  188 (190)
T ss_dssp             HHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC---
T ss_pred             HhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhcc
Confidence            77732      479999999999999999999999877654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.95  E-value=7.2e-27  Score=160.90  Aligned_cols=151  Identities=19%  Similarity=0.205  Sum_probs=105.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc-------ccccccccccC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER-------FQSLGSAFYRG   84 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~   84 (210)
                      ++|+++|++|+|||||+++|.+..+. ....++.+.+........++.  .+.+|||||+..       +......+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999988754 233344445555566666664  689999999876       33444567889


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           85 ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        85 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      +|++++|+|++++.+...  .++..+...      .++|+++|+||+|+.+.      .+++..++ ..+..+++++||+
T Consensus        80 ~~~~i~v~d~~~~~~~~~--~~~~~~~~~------~~~p~ilv~nK~Dl~~~------~~~~~~~~-~~~~~~~~~~Sa~  144 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD--YEVAEYLRR------KGKPVILVATKVDDPKH------ELYLGPLY-GLGFGDPIPTSSE  144 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH--HHHHHHHHH------HTCCEEEEEECCCSGGG------GGGCGGGG-GGSSCSCEECBTT
T ss_pred             CCEEEEEEECCCcccHhH--HHHHHHHHh------cCCCEEEEEECcccccc------hHhHHHHH-hCCCCCeEEEecc
Confidence            999999999998644322  222222222      16799999999998653      23333444 4553489999999


Q ss_pred             CCCChHHHHHHHHHHH
Q 028305          165 EDCNIDEAFLCVAEIA  180 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~  180 (210)
                      +|.|++++|+++.+.+
T Consensus       145 ~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          145 HARGLEELLEAIWERL  160 (161)
T ss_dssp             TTBSHHHHHHHHHHHC
T ss_pred             cCCChHHHHHHHHHhC
Confidence            9999999999998764

>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=3.7e-27  Score=166.52  Aligned_cols=159  Identities=13%  Similarity=0.161  Sum_probs=121.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc------cccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ------SLGSAFYR   83 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~   83 (210)
                      ...++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||+..+.      .....++.
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            3579999999999999999999998765545556666666666676665  679999999988764      23344443


Q ss_pred             --CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           84 --GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        84 --~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                        .+|++++|+|.++   ++....|+..+..       .++|+++|+||+|+...  +... ++...+++..+ .+++++
T Consensus        83 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~-------~~~piilv~nK~Dl~~~--~~~~-~~~~~~~~~~~-~~~~~~  148 (188)
T 2wjg_A           83 NEKPDLVVNIVDATA---LERNLYLTLQLME-------MGANLLLALNKMDLAKS--LGIE-IDVDKLEKILG-VKVVPL  148 (188)
T ss_dssp             HHCCSEEEEEEEGGG---HHHHHHHHHHHHT-------TTCCEEEEEECHHHHHH--TTCC-CCHHHHHHHHT-SCEEEC
T ss_pred             ccCCCEEEEEecchh---HHHHHHHHHHHHh-------cCCCEEEEEEhhhcccc--ccch-HHHHHHHHHhC-CCeEEE
Confidence              5899999999875   4555666666654       16799999999998542  1111 35666777777 799999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhcc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ||++|.|++++|+++.+.+....
T Consensus       149 Sa~~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          149 SAAKKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             BGGGTBSHHHHHHHHHHHHTTC-
T ss_pred             EecCCCCHHHHHHHHHHHHHhcc
Confidence            99999999999999999987665

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.95  E-value=1.6e-28  Score=184.49  Aligned_cols=161  Identities=18%  Similarity=0.205  Sum_probs=118.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCC---cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc---cccccccCCcE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQ---QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS---LGSAFYRGADC   87 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~d~   87 (210)
                      ||+++|+.|+|||||++++.++.+..   ...++.+.++..    ++ ..+++++|||+|+++|..   ....+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887654332   245666655542    22 347899999999999964   35788999999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-----cccchHHHHHHHHHc---CCCc
Q 028305           88 CVLVYDVNVQ--KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-----RVVPQKKALEWCAYR---GNIP  157 (210)
Q Consensus        88 vi~v~d~~~~--~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-----~~~~~~~~~~~~~~~---~~~~  157 (210)
                      +|+|||++++  +....+..|+..+.....     ++|+++|+||+|+.+...     +++..++++++++..   ..+.
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~-----~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~  150 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVNP-----SINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVS  150 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHCT-----TCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEE
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcCC-----CCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCce
Confidence            9999999987  223333333444433322     789999999999976532     456666777777651   2378


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +++|||++ .+|.++|..+++.+.+..+
T Consensus       151 f~eTSAkd-~nV~eAFs~iv~~li~~~~  177 (331)
T 3r7w_B          151 FYLTSIFD-HSIYEAFSRIVQKLIPELS  177 (331)
T ss_dssp             EECCCSSS-SHHHHHHHHHHTTSSTTHH
T ss_pred             EEEeccCC-CcHHHHHHHHHHHHHhhHH
Confidence            99999998 5999999999988765543

>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=99.95  E-value=5.3e-27  Score=163.60  Aligned_cols=155  Identities=19%  Similarity=0.217  Sum_probs=112.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------cccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSAF   81 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   81 (210)
                      ..++|+|+|++|+|||||+++|.+..+. ....++++.++....+.+++.  .+.+|||||+.++...        ...+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            4689999999999999999999987643 233345555666667777764  4889999997653211        1235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ++.+|++++|+|++++.+++. ..|+..+.....    .++|+++|+||+|+.+... ..        +.. ...+++++
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~----~~~p~ilv~NK~Dl~~~~~-~~--------~~~-~~~~~~~~  145 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLP----AKLPITVVRNKADITGETL-GM--------SEV-NGHALIRL  145 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSC----TTCCEEEEEECHHHHCCCC-EE--------EEE-TTEEEEEC
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcc----cCCCEEEEEECccCCcchh-hh--------hhc-cCCceEEE
Confidence            789999999999999887653 467776665543    2689999999999854311 11        011 23689999


Q ss_pred             cCCCCCChHHHHHHHHHHHHh
Q 028305          162 SAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ||++|.|++++|++|.+.+..
T Consensus       146 SA~~g~gv~~l~~~l~~~~~~  166 (172)
T 2gj8_A          146 SARTGEGVDVLRNHLKQSMGF  166 (172)
T ss_dssp             CTTTCTTHHHHHHHHHHHC--
T ss_pred             eCCCCCCHHHHHHHHHHHhhh
Confidence            999999999999999887643

>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=3.7e-27  Score=173.90  Aligned_cols=151  Identities=16%  Similarity=0.168  Sum_probs=116.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc----------cccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS----------LGSAFY   82 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----------~~~~~~   82 (210)
                      .+|+++|++|+|||||+|+|.+........++++.+.....+..++.  .+.+|||||...+..          ....++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999988766666677777777777777774  799999999877653          334455


Q ss_pred             --cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           83 --RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        83 --~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                        ..+|++|+|+|+++.++...+..++..+          ++|+++|+||+|+........   ....+.+..+ +++++
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~~~----------~~pvilv~NK~Dl~~~~~~~~---~~~~l~~~lg-~~vi~  145 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLFEL----------GKPVVVALNMMDIAEHRGISI---DTEKLESLLG-CSVIP  145 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHTTS----------CSCEEEEEECHHHHHHTTCEE---CHHHHHHHHC-SCEEE
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHHHc----------CCCEEEEEEChhcCCcCCcHH---HHHHHHHHcC-CCEEE
Confidence              7899999999999866554443332221          789999999999864321222   2444566667 89999


Q ss_pred             ecCCCCCChHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~  179 (210)
                      +||++|.|++++|+++.+.
T Consensus       146 ~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          146 IQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             CBGGGTBSHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            9999999999999999887

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=2.9e-27  Score=191.58  Aligned_cols=167  Identities=24%  Similarity=0.332  Sum_probs=123.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEE------E--EeCCeEEEEEEEeCCCccccccccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKE------L--QMDDKLVTLQIWDTAGQERFQSLGS   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~------~--~~~~~~~~~~i~D~~g~~~~~~~~~   79 (210)
                      .....+||+++|.+|||||||+++|.+..+...+.++.+.++....      +  ..++..+.+.+|||||++.+.....
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            4567899999999999999999999998887777777776665442      1  1223457899999999999999999


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+++.+|++|+|+|+++.   +....|+..+.....     +.|+++|+||+|+.+.  +....+++..++...+ .+++
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~-----~~pvilV~NK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~  185 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGG-----KSPVIVVMNKIDENPS--YNIEQKKINERFPAIE-NRFH  185 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSS-----SCCEEEEECCTTTCTT--CCCCHHHHHHHCGGGT-TCEE
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCC-----CCCEEEEEECCCcccc--cccCHHHHHHHHHhcC-CceE
Confidence            999999999999999865   455678888877643     6799999999999765  4556677777777777 7899


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++||++|.|++++++.+.+.+.+...
T Consensus       186 ~vSA~~g~gi~eL~~~l~~~~~~~~~  211 (535)
T 3dpu_A          186 RISCKNGDGVESIAKSLKSAVLHPDS  211 (535)
T ss_dssp             ECCC-----CTTHHHHHHHHHTCTTS
T ss_pred             EEecCcccCHHHHHHHHHHHHhcccc
Confidence            99999999999999999998876543

>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=4.1e-27  Score=175.53  Aligned_cols=157  Identities=17%  Similarity=0.169  Sum_probs=117.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc----------ccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL----------GSA   80 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----------~~~   80 (210)
                      ..++|+++|.+|+|||||+|+|++..+.....++++.+.....+...+  ..+.+|||||+..+...          ...
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHH
Confidence            468999999999999999999998876656667777777777777665  45888999998776521          112


Q ss_pred             c--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           81 F--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        81 ~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      +  .+.+|++++|+|.++.+....+..++..+          ++|+++|+||+|+.+....   ......+.+..+ +++
T Consensus        80 ~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~----------~~p~ivv~NK~Dl~~~~~~---~~~~~~l~~~lg-~~~  145 (274)
T 3i8s_A           80 YILSGDADLLINVVDASNLERNLYLTLQLLEL----------GIPCIVALNMLDIAEKQNI---RIEIDALSARLG-CPV  145 (274)
T ss_dssp             HHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH----------TCCEEEEEECHHHHHHTTE---EECHHHHHHHHT-SCE
T ss_pred             HHhhcCCCEEEEEecCCChHHHHHHHHHHHhc----------CCCEEEEEECccchhhhhH---HHHHHHHHHhcC-CCE
Confidence            2  26899999999999866554444443332          6799999999998643211   223455666677 899


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +++||++|.|++++|+++.+.+...
T Consensus       146 i~~SA~~g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          146 IPLVSTRGRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             EECCCGGGHHHHHHHHHHHTCCCCC
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999998766543

>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=99.93  E-value=1.2e-26  Score=172.48  Aligned_cols=154  Identities=18%  Similarity=0.184  Sum_probs=112.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc------cccccccc-
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ------SLGSAFYR-   83 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~-   83 (210)
                      ..++|+++|++|+|||||+++|++........++.+.+.....  ++. ...+.+|||||+..+.      .....++. 
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~--~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~   78 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGL--VKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLS   78 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEE--CTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEEE--Eec-CCeEEEEECCCcCccCCCChHHHHHHHHHhc
Confidence            3689999999999999999999987654444555554443333  343 4679999999988765      23344554 


Q ss_pred             -CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           84 -GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        84 -~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                       .+|++++|+|+++.++.   ..|...+...       ++|+++|+||+|+...  +... .+...+++..+ ++++++|
T Consensus        79 ~~~d~vi~V~D~t~~e~~---~~~~~~l~~~-------~~p~ilv~NK~Dl~~~--~~~~-~~~~~l~~~lg-~~vi~~S  144 (272)
T 3b1v_A           79 QRADSILNVVDATNLERN---LYLTTQLIET-------GIPVTIALNMIDVLDG--QGKK-INVDKLSYHLG-VPVVATS  144 (272)
T ss_dssp             TCCSEEEEEEEGGGHHHH---HHHHHHHHHT-------CSCEEEEEECHHHHHH--TTCC-CCHHHHHHHHT-SCEEECB
T ss_pred             CCCCEEEEEecCCchHhH---HHHHHHHHhc-------CCCEEEEEEChhhCCc--CCcH-HHHHHHHHHcC-CCEEEEE
Confidence             69999999999886543   3455555431       7899999999998542  1111 34566677777 7999999


Q ss_pred             CCCCCChHHHHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~  181 (210)
                      |++|.|++++|+++.+.+.
T Consensus       145 A~~g~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          145 ALKQTGVDQVVKKAAHTTT  163 (272)
T ss_dssp             TTTTBSHHHHHHHHHHSCT
T ss_pred             ccCCCCHHHHHHHHHHHHh
Confidence            9999999999999988653

>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=1.6e-26  Score=167.61  Aligned_cols=168  Identities=14%  Similarity=0.065  Sum_probs=109.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC--CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc----------cccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF--SQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ----------ERFQ   75 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~----------~~~~   75 (210)
                      .....++|+|+|.+|+|||||+++|++...  .....++.+......... ......+.+|||||.          +.+.
T Consensus        25 ~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~~l~DtpG~~~~~~~~~~~~~~~  103 (223)
T 4dhe_A           25 PPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVG-PAAEPVAHLVDLPGYGYAEVPGAAKAHWE  103 (223)
T ss_dssp             CCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEES-CTTSCSEEEEECCCCCSSCCCSTHHHHHH
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEec-CCCCCcEEEEcCCCCCcccCChhhHHHHH
Confidence            345678999999999999999999998863  222223333333222222 123356999999994          3334


Q ss_pred             ccccccccC---CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           76 SLGSAFYRG---ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        76 ~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      .....+++.   +|++++|+|.+++.+... ..++..+..       .++|+++|+||+|+.+........++.......
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~-~~~~~~l~~-------~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~  175 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLTELD-RRMIEWFAP-------TGKPIHSLLTKCDKLTRQESINALRATQKSLDA  175 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHGG-------GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCCHHH-HHHHHHHHh-------cCCCEEEEEeccccCChhhHHHHHHHHHHHHHh
Confidence            444455544   788999999987544222 334444433       167999999999997532222223333344433


Q ss_pred             c------CCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          153 R------GNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       153 ~------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      .      ...+++++||++|.|++++|++|.+.+....
T Consensus       176 ~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          176 YRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             HHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             hhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence            2      4578999999999999999999999886553

>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=99.93  E-value=1.3e-25  Score=167.32  Aligned_cols=159  Identities=18%  Similarity=0.152  Sum_probs=120.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc------cccccc--
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS------LGSAFY--   82 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--   82 (210)
                      +.++|+++|++|+|||||+++|.+..+.....++.+.+.....+...+  ..+.+|||||+..+..      ....++  
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            468999999999999999999998877656677777777777777766  4599999999887665      334444  


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ..+|++++|+|.++.+   ....|+..+....      .+|+++|+||+|+.+..  .. ......+.+..+ .+++++|
T Consensus        80 ~~~d~vi~v~D~~~~~---~~~~~~~~~~~~~------~~p~ilv~NK~Dl~~~~--~~-~~~~~~l~~~lg-~~~~~~S  146 (271)
T 3k53_A           80 GNADVIVDIVDSTCLM---RNLFLTLELFEME------VKNIILVLNKFDLLKKK--GA-KIDIKKMRKELG-VPVIPTN  146 (271)
T ss_dssp             TCCSEEEEEEEGGGHH---HHHHHHHHHHHTT------CCSEEEEEECHHHHHHH--TC-CCCHHHHHHHHS-SCEEECB
T ss_pred             cCCcEEEEEecCCcch---hhHHHHHHHHhcC------CCCEEEEEEChhcCccc--cc-HHHHHHHHHHcC-CcEEEEE
Confidence            6799999999998853   2334444444331      27999999999975421  11 112566667777 8999999


Q ss_pred             CCCCCChHHHHHHHHHHHHhcc
Q 028305          163 AKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      |++|.|++++|+.+.+.+....
T Consensus       147 a~~g~gi~~l~~~i~~~~~~~~  168 (271)
T 3k53_A          147 AKKGEGVEELKRMIALMAEGKV  168 (271)
T ss_dssp             GGGTBTHHHHHHHHHHHHHTCC
T ss_pred             eCCCCCHHHHHHHHHHHHhccc
Confidence            9999999999999999876543

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.93  E-value=1.8e-25  Score=176.88  Aligned_cols=164  Identities=16%  Similarity=0.159  Sum_probs=114.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----------ccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----------FQSLG   78 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~   78 (210)
                      +..++|+++|.+|+|||||+|+|++.... ....++++.+.....+..++.  .+.+|||||+.+          +....
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            46799999999999999999999987754 344456666666666677764  589999999732          22222


Q ss_pred             -cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH----HHHHHHc
Q 028305           79 -SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA----LEWCAYR  153 (210)
Q Consensus        79 -~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~----~~~~~~~  153 (210)
                       ..+++.+|++++|+|++++.++... .|...+...       ++|+++|+||+|+.+..  ....++.    .......
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~~-------~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~l~~~  320 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHEA-------GKAVVIVVNKWDAVDKD--ESTMKEFEENIRDHFQFL  320 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHHT-------TCEEEEEEECGGGSCCC--TTHHHHHHHHHHHHCGGG
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHHc-------CCcEEEEEECccCCCcc--hHHHHHHHHHHHHhcccC
Confidence             2467889999999999998887765 455555432       67999999999997642  2222222    2222222


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ...+++++||++|.|++++|+.+.+.+.+...
T Consensus       321 ~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~~~  352 (436)
T 2hjg_A          321 DYAPILFMSALTKKRIHTLMPAIIKASENHSL  352 (436)
T ss_dssp             TTSCEEECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             CCCCEEEEecccCCCHHHHHHHHHHHHHHhhc
Confidence            34789999999999999999999998876543

>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=99.92  E-value=1.7e-24  Score=163.14  Aligned_cols=159  Identities=18%  Similarity=0.128  Sum_probs=110.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--------ccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--------FQSLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~   80 (210)
                      .+..+|+++|.+|+|||||+|+|++..+.. ...+.++..........+  ..++.+|||||..+        +......
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~--~~~l~l~DTpG~~~~~~~l~~~~~~~~~~   82 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEG--RRQIVFVDTPGLHKPMDALGEFMDQEVYE   82 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET--TEEEEEEECCCCCCCCSHHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeC--CcEEEEecCccccchhhHHHHHHHHHHHH
Confidence            456789999999999999999999887752 233333333333333333  36799999999765        3344566


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHH-HHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWR-EEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~-~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      +++.+|++++|+|++++.+..  ..|+ ..+....     .+.|+++|+||+|+.+.  .....+.+..+   .+..+++
T Consensus        83 ~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~-----~~~p~ilV~NK~Dl~~~--~~~~~~~~~~~---~~~~~~~  150 (301)
T 1wf3_A           83 ALADVNAVVWVVDLRHPPTPE--DELVARALKPLV-----GKVPILLVGNKLDAAKY--PEEAMKAYHEL---LPEAEPR  150 (301)
T ss_dssp             HTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGT-----TTSCEEEEEECGGGCSS--HHHHHHHHHHT---STTSEEE
T ss_pred             HHhcCCEEEEEEECCCCCChH--HHHHHHHHHhhc-----CCCCEEEEEECcccCCc--hHHHHHHHHHh---cCcCcEE
Confidence            788999999999998865433  3343 3443321     26799999999998753  11012222222   3445799


Q ss_pred             EecCCCCCChHHHHHHHHHHHHh
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++||++|.|++++++.+.+.+.+
T Consensus       151 ~iSA~~g~gv~~l~~~l~~~l~~  173 (301)
T 1wf3_A          151 MLSALDERQVAELKADLLALMPE  173 (301)
T ss_dssp             ECCTTCHHHHHHHHHHHHTTCCB
T ss_pred             EEeCCCCCCHHHHHHHHHHhccc
Confidence            99999999999999999887644

>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=99.92  E-value=1.5e-24  Score=172.32  Aligned_cols=158  Identities=17%  Similarity=0.184  Sum_probs=99.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc--------cc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG--------SA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~   80 (210)
                      ...++|+|+|++|+|||||+|+|.+.... ....++++.+.....+..++  ..+.+|||||+.++....        ..
T Consensus       231 r~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~  308 (476)
T 3gee_A          231 SEGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRM  308 (476)
T ss_dssp             HHCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------C
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHh
Confidence            34689999999999999999999987532 34556666777777777776  579999999987655433        34


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++.+|++++|+|++++.++..+..+...+ ....     ++|+++|+||+|+.+..  ..   ....+..... .++++
T Consensus       309 ~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l-~~l~-----~~piIvV~NK~Dl~~~~--~~---~~~~l~~~~~-~~~i~  376 (476)
T 3gee_A          309 KMAEADLILYLLDLGTERLDDELTEIRELK-AAHP-----AAKFLTVANKLDRAANA--DA---LIRAIADGTG-TEVIG  376 (476)
T ss_dssp             CCSSCSEEEEEEETTTCSSGGGHHHHHHHH-HHCT-----TSEEEEEEECTTSCTTT--HH---HHHHHHHHHT-SCEEE
T ss_pred             hcccCCEEEEEEECCCCcchhhhHHHHHHH-HhcC-----CCCEEEEEECcCCCCcc--ch---hHHHHHhcCC-CceEE
Confidence            678999999999999988775433333222 2222     67999999999997642  22   1123333322 68999


Q ss_pred             ecCCCCCChHHHHHHHHHHHH
Q 028305          161 TSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      +||++|.|+++++++|.+.+.
T Consensus       377 vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          377 ISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             CBTTTTBSHHHHHHHHTHHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHh
Confidence            999999999999999999886

>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=1.4e-23  Score=162.12  Aligned_cols=163  Identities=18%  Similarity=0.151  Sum_probs=119.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc---------cccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS---------LGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---------~~~~   80 (210)
                      ...++|+++|++|+|||||+++|.+........+..+...........+  ..+.+|||||......         ....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDGY--FRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEETT--EEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEecC--ceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            4678999999999999999999998764322223333333334444443  6799999999754311         1123


Q ss_pred             cccCCcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           81 FYRGADCCVLVYDVNVQK--TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      ....+|++++|+|++++.  +++....|+..+.....     +.|+++|+||+|+.+.  .  ..++...++...+ .++
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-----~~piilV~NK~Dl~~~--~--~~~~~~~~~~~~~-~~~  312 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-----DLPFLVVINKIDVADE--E--NIKRLEKFVKEKG-LNP  312 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-----TSCEEEEECCTTTCCH--H--HHHHHHHHHHHTT-CCC
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-----CCCEEEEEECcccCCh--H--HHHHHHHHHHhcC-CCe
Confidence            345689999999999877  67777788888776543     6799999999999753  1  1244555555555 789


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +++||++|.|++++++++.+.+....
T Consensus       313 ~~iSA~~g~gi~~l~~~i~~~l~~~~  338 (357)
T 2e87_A          313 IKISALKGTGIDLVKEEIIKTLRPLA  338 (357)
T ss_dssp             EECBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCcCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999986543

>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=2.7e-25  Score=173.84  Aligned_cols=160  Identities=24%  Similarity=0.254  Sum_probs=113.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc-------c
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG-------S   79 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-------~   79 (210)
                      +....++|+|+|+.|+|||||+++|++..+. ....++++.+.....+...+. ..+.+|||||+.++....       .
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~  108 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKAR  108 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHH
Confidence            3557899999999999999999999987763 334445555666666666554 379999999998776552       3


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .++..+|++++|+|+....   ....|+..+...       ++|+++|+||+|+.+....    +....+.+..+ .+++
T Consensus       109 ~~l~~aD~vllVvD~~~~~---~~~~~l~~l~~~-------~~piIvV~NK~Dl~~~~~~----~~~~~l~~~~g-~~v~  173 (423)
T 3qq5_A          109 RVFYRADCGILVTDSAPTP---YEDDVVNLFKEM-------EIPFVVVVNKIDVLGEKAE----ELKGLYESRYE-AKVL  173 (423)
T ss_dssp             HHHTSCSEEEEECSSSCCH---HHHHHHHHHHHT-------TCCEEEECCCCTTTTCCCT----HHHHHSSCCTT-CCCC
T ss_pred             HHHhcCCEEEEEEeCCChH---HHHHHHHHHHhc-------CCCEEEEEeCcCCCCccHH----HHHHHHHHHcC-CCEE
Confidence            4678899999999984332   234566666543       6799999999999765321    44555555555 7999


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ++||++|.|++++|++|.+.+.+.
T Consensus       174 ~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          174 LVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             CCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             EEECCCCCCHHHHHHHHHHhhhhh
Confidence            999999999999999999998655

>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=99.91  E-value=2.2e-24  Score=171.52  Aligned_cols=165  Identities=18%  Similarity=0.152  Sum_probs=116.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCeEEEEEEEeCCC----------ccccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG----------QERFQSL   77 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~   77 (210)
                      ....++|+++|.+|+|||||+++|.+... .....++++.+.....+..++.  .+.+|||||          ++.+...
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~  269 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVL  269 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHH
Confidence            35689999999999999999999997652 2334455555555555666664  699999999          4555544


Q ss_pred             cc-ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---
Q 028305           78 GS-AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---  153 (210)
Q Consensus        78 ~~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---  153 (210)
                      .. .+++.+|++++|+|+++..... ...|...+...       ++|+++|+||+|+.+.  +....++....++..   
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~~~-~~~~~~~~~~~-------~~~~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~  339 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGIIEQ-DKRIAGYAHEA-------GKAVVIVVNKWDAVDK--DESTMKEFEENIRDHFQF  339 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHHT-------TCEEEEEEECGGGSCC--CSSHHHHHHHHHHHHCGG
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcCHH-HHHHHHHHHHc-------CCCEEEEEEChhcCCC--chHHHHHHHHHHHHhccc
Confidence            43 4678899999999998754422 23444444431       6799999999999764  334445554444443   


Q ss_pred             -CCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          154 -GNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       154 -~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                       +..+++++||++|.|++++|+.+.+.+.+...
T Consensus       340 ~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          340 LDYAPILFMSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             GTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             CCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhcc
Confidence             34789999999999999999999998876654

>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=99.91  E-value=1.9e-25  Score=161.35  Aligned_cols=150  Identities=13%  Similarity=0.153  Sum_probs=105.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCC---cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC-
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ---QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG-   84 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~-   84 (210)
                      ....++|+|+|++|+|||||+++|.+..+..   .+.++.+.++         ....+.+|||||++.+...+..+++. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            4578999999999999999999999887653   2333333222         34569999999999998888888876 


Q ss_pred             ---CcEEEEEEECC-ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----cchHHHHHHHHHcCCC
Q 028305           85 ---ADCCVLVYDVN-VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----VPQKKALEWCAYRGNI  156 (210)
Q Consensus        85 ---~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----~~~~~~~~~~~~~~~~  156 (210)
                         +|++|+|+|++ ++.++.....|+..+..........++|+++|+||+|+.+.....    ...+++..++...+ .
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~-~  158 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRK-K  158 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHH-H
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHh-c
Confidence               89999999999 888998888888877654211011278999999999997653211    12455666666655 6


Q ss_pred             cEEEecCCCCCC
Q 028305          157 PYFETSAKEDCN  168 (210)
Q Consensus       157 ~~~~~Sa~~~~~  168 (210)
                      .++++||++|.+
T Consensus       159 ~~~~~Sa~~~~~  170 (218)
T 1nrj_B          159 SLNEVERKINEE  170 (218)
T ss_dssp             HHHC--------
T ss_pred             cccccccccccc
Confidence            899999998875

>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=99.91  E-value=5.6e-24  Score=169.75  Aligned_cols=160  Identities=16%  Similarity=0.119  Sum_probs=114.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc-------CCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK-------FSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAF   81 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   81 (210)
                      ....++|+++|++++|||||+++|.+..       ...+..++.+++.....+.+++  ..+.+|||||++++.......
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~   93 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSA   93 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHH
Confidence            3468999999999999999999999766       2233344444444444455555  679999999999998888889


Q ss_pred             ccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---CC
Q 028305           82 YRGADCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---GN  155 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---~~  155 (210)
                      +..+|++|+|+|+++   +.+.+.+.    .+...       ++|+++|+||+|+.+........+++..++...   ..
T Consensus        94 ~~~aD~~ilVvda~~g~~~qt~e~l~----~~~~~-------~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~  162 (482)
T 1wb1_A           94 ADIIDLALIVVDAKEGPKTQTGEHML----ILDHF-------NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKN  162 (482)
T ss_dssp             TTSCCEEEEEEETTTCSCHHHHHHHH----HHHHT-------TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGG
T ss_pred             HhhCCEEEEEEecCCCccHHHHHHHH----HHHHc-------CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhccccc
Confidence            999999999999987   33433322    22211       678999999999975322333455566666554   14


Q ss_pred             CcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          156 IPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       156 ~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .+++++||++|.|+++++++|.+.+.
T Consensus       163 ~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          163 SSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            78999999999999999999999875

>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=99.91  E-value=1.8e-23  Score=163.87  Aligned_cols=169  Identities=17%  Similarity=0.098  Sum_probs=118.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEE-------E---------E---eCCeEEEEEEEe
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKE-------L---------Q---MDDKLVTLQIWD   67 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~-------~---------~---~~~~~~~~~i~D   67 (210)
                      +..+..++|+++|++|+|||||+++|++......... .........       +         .   .......+.+||
T Consensus         3 ~~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiD   81 (403)
T 3sjy_A            3 PKVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGY-AETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFID   81 (403)
T ss_dssp             CCCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEE-EEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEE
T ss_pred             CccCCCcEEEEECCCCCCHHHHHHHHhCcccccccCc-cccceeeccccccccceecccccccccccccccccceEEEEE
Confidence            4567789999999999999999999997543321100 000000000       0         0   011236799999


Q ss_pred             CCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH
Q 028305           68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL  147 (210)
Q Consensus        68 ~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~  147 (210)
                      |||++++......++..+|++++|+|++++.++.....++..+....      ..|+++|+||+|+.+........+++.
T Consensus        82 tPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~------~~~iivviNK~Dl~~~~~~~~~~~~i~  155 (403)
T 3sjy_A           82 APGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG------VKNLIIVQNKVDVVSKEEALSQYRQIK  155 (403)
T ss_dssp             CCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT------CCCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC------CCCEEEEEECccccchHHHHHHHHHHH
Confidence            99999999999999999999999999998766666666666554432      248999999999976422222333444


Q ss_pred             HHHHHcC--CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          148 EWCAYRG--NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       148 ~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      .++...+  ..+++++||++|.|+++++++|.+.+..
T Consensus       156 ~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~  192 (403)
T 3sjy_A          156 QFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  192 (403)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCC
Confidence            4443322  4689999999999999999999987643

>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=2.3e-24  Score=164.57  Aligned_cols=163  Identities=18%  Similarity=0.146  Sum_probs=117.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----ccccccccc---cCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----FQSLGSAFY---RGA   85 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~~~~---~~~   85 (210)
                      .+|+|+|.+|||||||+++|++..+.....+.++.......+.+++ ...+.+|||||..+    +..+...++   ..+
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 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERT  237 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhc
Confidence            4689999999999999999997654322222233333334455543 24689999999543    233434444   459


Q ss_pred             cEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC-CcEEEe
Q 028305           86 DCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN-IPYFET  161 (210)
Q Consensus        86 d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  161 (210)
                      |++|+|+|+++   +.+++.+..|...+..+...  ..++|+++|+||+|+...      .+....+.+.... .+++++
T Consensus       238 d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~--l~~~p~ilV~NK~Dl~~~------~e~~~~l~~~l~~~~~v~~i  309 (342)
T 1lnz_A          238 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLR--LTERPQIIVANKMDMPEA------AENLEAFKEKLTDDYPVFPI  309 (342)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSS--TTTSCBCBEEECTTSTTH------HHHHHHHHHHCCSCCCBCCC
T ss_pred             cEEEEEEECCcccccChHHHHHHHHHHHHHhhhh--hcCCCEEEEEECccCCCC------HHHHHHHHHHhhcCCCEEEE
Confidence            99999999998   78888888888888775321  127899999999998642      1344555555542 579999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhcc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ||+++.|+++++++|.+.+.+..
T Consensus       310 SA~tg~gi~eL~~~l~~~l~~~~  332 (342)
T 1lnz_A          310 SAVTREGLRELLFEVANQLENTP  332 (342)
T ss_dssp             SSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             ECCCCcCHHHHHHHHHHHHhhCc
Confidence            99999999999999999887654

>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=99.91  E-value=3.3e-23  Score=162.64  Aligned_cols=165  Identities=19%  Similarity=0.184  Sum_probs=106.9

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCc---CCCcccceeee--EEEEEEEEe-------------C--C----eEEE
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNK---FSQQYKATIGA--DFVTKELQM-------------D--D----KLVT   62 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~--~~~~~~~~~-------------~--~----~~~~   62 (210)
                      +.++..++|+++|+.++|||||+++|.+..   +..+..++.++  .+....+..             +  +    ....
T Consensus         3 ~~r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~   82 (408)
T 1s0u_A            3 LGSQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRR   82 (408)
T ss_dssp             --CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEE
T ss_pred             cccCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccE
Confidence            345678999999999999999999998442   23333342222  332222211             1  1    1378


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS  138 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~  138 (210)
                      +.+|||||+++|.......+..+|++|+|+|++++    ++.+.+.    .+.. ..     ..|+++|+||+|+.+...
T Consensus        83 i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~-l~-----~~~iivv~NK~Dl~~~~~  152 (408)
T 1s0u_A           83 VSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEI-LG-----IDKIIIVQNKIDLVDEKQ  152 (408)
T ss_dssp             EEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHH-TT-----CCCEEEEEECTTSSCTTT
T ss_pred             EEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHH-cC-----CCeEEEEEEccCCCCHHH
Confidence            99999999999988888888899999999999954    3333332    2221 11     348999999999976543


Q ss_pred             cccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .....+++..++...  ...+++++||++|.|+++++++|.+.+.
T Consensus       153 ~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          153 AEENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             TTTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            334456666666543  2478999999999999999999988664

>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=99.90  E-value=3.4e-23  Score=163.94  Aligned_cols=155  Identities=22%  Similarity=0.272  Sum_probs=104.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------ccccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------FQSLGSAFY   82 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~   82 (210)
                      .+|+++|.||+|||||+|+|++.... ....++++.+.....+..++.  .+.+|||||...         +......++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHH
Confidence            47999999999999999999987653 344566666666677777774  578999999653         233456678


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH-HHHHHHcCCCcEEEe
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA-LEWCAYRGNIPYFET  161 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  161 (210)
                      +.+|++++|+|..++.+...  .++..+.+..      ++|+++|+||+|+...    . ..+. ..+. ..+...++++
T Consensus        80 ~~ad~il~V~D~~~~~~~~d--~~i~~~l~~~------~~p~ilv~NK~D~~~~----~-~~~~~~~~~-~lg~~~~~~i  145 (439)
T 1mky_A           80 READLVLFVVDGKRGITKED--ESLADFLRKS------TVDTILVANKAENLRE----F-EREVKPELY-SLGFGEPIPV  145 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHH--HHHHHHHHHH------TCCEEEEEESCCSHHH----H-HHHTHHHHG-GGSSCSCEEC
T ss_pred             HhCCEEEEEEECCCCCCHHH--HHHHHHHHHc------CCCEEEEEeCCCCccc----c-HHHHHHHHH-hcCCCCEEEE
Confidence            99999999999987654432  1222222211      6799999999997421    1 1222 3343 3453478999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ||++|.|+.++++++.+.+.+.
T Consensus       146 SA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          146 SAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHT
T ss_pred             eccCCCCHHHHHHHHHHhcccc
Confidence            9999999999999999988754

>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=99.90  E-value=1.1e-23  Score=167.31  Aligned_cols=154  Identities=16%  Similarity=0.203  Sum_probs=115.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc-cccc--------cccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE-RFQS--------LGSA   80 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-~~~~--------~~~~   80 (210)
                      ..++|+++|.||+|||||+|+|.+.... ....++++.+.....+.+++  ..+.+|||||.. ++..        ....
T Consensus       242 ~~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~  319 (482)
T 1xzp_A          242 RGLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQ  319 (482)
T ss_dssp             HCEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHH
T ss_pred             CCCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHH
Confidence            3489999999999999999999987543 34456666677667777776  568999999987 5442        2245


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++.+|++++|+|++++.+++... ++..+    .     +.|+++|+||+|+.+.    ...+++..++. . ..++++
T Consensus       320 ~~~~aD~vl~VvD~s~~~s~~~~~-il~~l----~-----~~piivV~NK~DL~~~----~~~~~~~~~~~-~-~~~~i~  383 (482)
T 1xzp_A          320 EIEKADIVLFVLDASSPLDEEDRK-ILERI----K-----NKRYLVVINKVDVVEK----INEEEIKNKLG-T-DRHMVK  383 (482)
T ss_dssp             HHHHCSEEEEEEETTSCCCHHHHH-HHHHH----T-----TSSEEEEEEECSSCCC----CCHHHHHHHHT-C-STTEEE
T ss_pred             HhhcccEEEEEecCCCCCCHHHHH-HHHHh----c-----CCCEEEEEECcccccc----cCHHHHHHHhc-C-CCcEEE
Confidence            678899999999999987776532 22222    1     6799999999999653    22344444332 2 268999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHh
Q 028305          161 TSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +||++|.|+++++++|.+.+..
T Consensus       384 iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          384 ISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             EEGGGTCCHHHHHHHHHHHTHH
T ss_pred             EECCCCCCHHHHHHHHHHHHhh
Confidence            9999999999999999998663

>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=99.90  E-value=8.5e-23  Score=154.06  Aligned_cols=161  Identities=16%  Similarity=0.117  Sum_probs=110.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc---------ccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQE---------RFQSLGS   79 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~   79 (210)
                      .+..+|+++|++|+|||||+++|++..+.. ...+.++.......+..++  ..+.+|||||+.         .+.....
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~~~l~~~~~~~~~   83 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   83 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECC--eeEEEEECcCCCccchhhHHHHHHHHHH
Confidence            456689999999999999999999876531 2222222222233333333  578999999986         2344456


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+++.+|++++|+|.++   +.....++......      .+.|+++|+||+|+...  .....+.+..+.+..+...++
T Consensus        84 ~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~~------~~~P~ilvlNK~D~~~~--~~~~~~~l~~l~~~~~~~~~i  152 (301)
T 1ega_A           84 SSIGDVELVIFVVEGTR---WTPDDEMVLNKLRE------GKAPVILAVNKVDNVQE--KADLLPHLQFLASQMNFLDIV  152 (301)
T ss_dssp             SCCCCEEEEEEEEETTC---CCHHHHHHHHHHHS------SSSCEEEEEESTTTCCC--HHHHHHHHHHHHTTSCCSEEE
T ss_pred             HHHhcCCEEEEEEeCCC---CCHHHHHHHHHHHh------cCCCEEEEEECcccCcc--HHHHHHHHHHHHHhcCcCceE
Confidence            77889999999999976   22223333322221      16799999999999752  233445555565555534799


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ++||++|.|++++++.+.+.+...
T Consensus       153 ~iSA~~g~~v~~l~~~i~~~l~~~  176 (301)
T 1ega_A          153 PISAETGLNVDTIAAIVRKHLPEA  176 (301)
T ss_dssp             ECCTTTTTTHHHHHHHHHTTCCBC
T ss_pred             EEECCCCCCHHHHHHHHHHhCCcC
Confidence            999999999999999998876543

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.90  E-value=1.6e-25  Score=179.29  Aligned_cols=163  Identities=18%  Similarity=0.197  Sum_probs=117.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ++++|+++|++++|||||+++|.+..+.....++.+.++....+...+ ...+.+|||||++.|...+..+++.+|++|+
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            567899999999999999999997776655555555554443333321 2368999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHH---HHHc-CCCcEEEecCCCC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEW---CAYR-GNIPYFETSAKED  166 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~Sa~~~  166 (210)
                      |+|+++.........| ..+..   .    ++|+++|+||+|+.+...... ..+....   +..+ +..+++++||++|
T Consensus        82 VVDa~dg~~~qt~e~l-~~~~~---~----~vPiIVViNKiDl~~~~~~~v-~~~l~~~~~~~e~~~~~~~iv~vSAktG  152 (537)
T 3izy_P           82 VVAADDGVMKQTVESI-QHAKD---A----HVPIVLAINKCDKAEADPEKV-KKELLAYDVVCEDYGGDVQAVHVSALTG  152 (537)
T ss_dssp             ECBSSSCCCHHHHHHH-HHHHT---T----TCCEEECCBSGGGTTTSCCSS-SSHHHHTTSCCCCSSSSEEECCCCSSSS
T ss_pred             EEECCCCccHHHHHHH-HHHHH---c----CCcEEEEEecccccccchHHH-HHHHHhhhhhHHhcCCCceEEEEECCCC
Confidence            9999986555444333 22221   1    779999999999975432222 1222111   1111 2357999999999


Q ss_pred             CChHHHHHHHHHHHHhc
Q 028305          167 CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~  183 (210)
                      .|++++++++...+...
T Consensus       153 ~GI~eLle~I~~l~~~~  169 (537)
T 3izy_P          153 ENMMALAEATIALAEML  169 (537)
T ss_dssp             CSSHHHHHHHHHHHTTC
T ss_pred             CCchhHHHHHHHhhhcc
Confidence            99999999999887543

>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=99.90  E-value=5.5e-23  Score=161.48  Aligned_cols=165  Identities=19%  Similarity=0.185  Sum_probs=113.4

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCc---CCCcccceeee--EEEEEEEEe-------------C--C----eEEE
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNK---FSQQYKATIGA--DFVTKELQM-------------D--D----KLVT   62 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~--~~~~~~~~~-------------~--~----~~~~   62 (210)
                      ..++..++|+++|+.++|||||+++|.+..   +..+..++.++  .+....+..             .  +    ....
T Consensus         5 ~~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~   84 (410)
T 1kk1_A            5 KSRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRR   84 (410)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEE
T ss_pred             ccCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccE
Confidence            345778999999999999999999998542   23333343333  332222211             0  1    1367


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQ----KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS  138 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~  138 (210)
                      +.+|||||+++|.......+..+|++|+|+|+++.    .+.+.+.    .+... .     ..|+++|+||+|+.+...
T Consensus        85 i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~-~-----~~~iivviNK~Dl~~~~~  154 (410)
T 1kk1_A           85 VSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQII-G-----QKNIIIAQNKIELVDKEK  154 (410)
T ss_dssp             EEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHH-T-----CCCEEEEEECGGGSCHHH
T ss_pred             EEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHc-C-----CCcEEEEEECccCCCHHH
Confidence            99999999999988888888899999999999964    3333332    22222 1     348999999999976321


Q ss_pred             cccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          139 RVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      .....+++..++...  ...+++++||++|.|+++++++|.+.+.
T Consensus       155 ~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          155 ALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            123344555555432  3478999999999999999999988665

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.89  E-value=1.4e-22  Score=160.11  Aligned_cols=158  Identities=17%  Similarity=0.192  Sum_probs=110.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcC-------------------------------CCcccceeeeEEEEEEEEe
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKF-------------------------------SQQYKATIGADFVTKELQM   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   56 (210)
                      .....++|+++|++++|||||+++|+...-                               ..+...+.+++.....+..
T Consensus        13 ~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~   92 (439)
T 3j2k_7           13 PKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET   92 (439)
T ss_pred             CCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec
Confidence            345789999999999999999999964321                               1122244555655555555


Q ss_pred             CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhh---HH---HHHHHHHHHHHhcCCCCCCCCC-EEEEEe
Q 028305           57 DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKT---FE---SLQNWREEFLKQADPGEHEACP-FVLLGN  129 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~---~~~~~~~~l~~~~~~~~~~~~p-~ilv~~  129 (210)
                      ++  ..+.+|||||+++|...+..+++.+|++|+|+|+++...   ++   .....+..+...       ++| +++|+|
T Consensus        93 ~~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~-------~v~~iIvviN  163 (439)
T 3j2k_7           93 EK--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA-------GVKHLIVLIN  163 (439)
T ss_pred             CC--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHc-------CCCeEEEEee
Confidence            44  579999999999999999999999999999999987532   11   111111222111       566 999999


Q ss_pred             cCCCCCCCC----cccchHHHHHHHHHcC-----CCcEEEecCCCCCChHHHHH
Q 028305          130 KIDTDGGSS----RVVPQKKALEWCAYRG-----NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       130 K~D~~~~~~----~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      |+|+.....    .....+++..++...+     ..+++++||++|.|+.++++
T Consensus       164 K~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          164 KMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             cCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            999964211    2233445555655554     35799999999999999766

>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=2.3e-23  Score=164.88  Aligned_cols=155  Identities=24%  Similarity=0.207  Sum_probs=105.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc--------ccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG--------SAF   81 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   81 (210)
                      ..++|+++|++|+|||||+|+|.+.... ....++++.+.....+..++  ..+.+|||||..++....        ..+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhh
Confidence            5689999999999999999999977543 33445555555555566666  568999999976654333        335


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEe
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ++.+|++++|+|.+++.+... ..|+..+.         ..|+++|+||+|+.+.....    ....+.   ...+++++
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~---------~~piivV~NK~Dl~~~~~~~----~~~~~~---~~~~~i~i  363 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVK---------HRPLILVMNKIDLVEKQLIT----SLEYPE---NITQIVHT  363 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHT---------TSCEEEEEECTTSSCGGGST----TCCCCT---TCCCEEEE
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhcc---------CCcEEEEEECCCCCcchhhH----HHHHhc---cCCcEEEE
Confidence            788999999999998766554 34444432         35999999999997542111    111111   23689999


Q ss_pred             cCCCCCChHHHHHHHHHHHHhcc
Q 028305          162 SAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ||++|.|+++++++|.+.+....
T Consensus       364 SAktg~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          364 AAAQKQGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             BTTTTBSHHHHHHHHHHHHTTSS
T ss_pred             ECCCCCCHHHHHHHHHHHHhccC
Confidence            99999999999999999886543

>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=99.89  E-value=1.7e-22  Score=163.88  Aligned_cols=162  Identities=17%  Similarity=0.184  Sum_probs=115.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc--CCCc-------------ccceeeeE--EEEEEEEe-CCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK--FSQQ-------------YKATIGAD--FVTKELQM-DDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~-------------~~~~~~~~--~~~~~~~~-~~~~~~~~i~D~~g   70 (210)
                      .+...+|+++|+.++|||||+++|+...  ....             ...+.++.  .....+.. ++..+.+++|||||
T Consensus         3 ~~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPG   82 (600)
T 2ywe_A            3 QKNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPG   82 (600)
T ss_dssp             GGGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCC
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCC
Confidence            3567899999999999999999998532  1100             00111111  11111221 45568899999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC  150 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~  150 (210)
                      +.+|......+++.+|++|+|+|+++.........|......        ++|+++|+||+|+.+..    ..+...++.
T Consensus        83 h~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~--------~ipiIvviNKiDl~~a~----~~~v~~el~  150 (600)
T 2ywe_A           83 HVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQ--------DLVIIPVINKIDLPSAD----VDRVKKQIE  150 (600)
T ss_dssp             SGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHT--------TCEEEEEEECTTSTTCC----HHHHHHHHH
T ss_pred             cHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHC--------CCCEEEEEeccCccccC----HHHHHHHHH
Confidence            999998888999999999999999998887777777655431        78999999999997642    223344455


Q ss_pred             HHcCC--CcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          151 AYRGN--IPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       151 ~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ...+.  ..++++||++|.|++++++++.+.+..
T Consensus       151 ~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          151 EVLGLDPEEAILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             HTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HhhCCCcccEEEEEeecCCCchHHHHHHHHhccc
Confidence            54442  249999999999999999999987754

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.89  E-value=1.2e-22  Score=164.90  Aligned_cols=160  Identities=19%  Similarity=0.176  Sum_probs=111.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc--CCC---------c----ccceeeeEEEEEEEEe---CCeEEEEEEEeCCCcc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK--FSQ---------Q----YKATIGADFVTKELQM---DDKLVTLQIWDTAGQE   72 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~---------~----~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~   72 (210)
                      ...+|+++|+.++|||||+++|+...  ...         .    ...+.++......+.+   ++..+.+.+|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            56899999999999999999998532  110         0    0111111111112222   5567899999999999


Q ss_pred             cccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           73 RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      +|...+..+++.+|++|+|+|+++.........|......        ++|+++|+||+|+.+..    ..+...++...
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~--------~ipiIvViNKiDl~~a~----~~~v~~ei~~~  150 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEM--------DLEVVPVLNKIDLPAAD----PERVAEEIEDI  150 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHT--------TCEEEEEEECTTSTTCC----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHC--------CCCEEEeeeccCccccc----HHHHHHHHHHH
Confidence            9999999999999999999999998777777777655432        77999999999997642    23333444444


Q ss_pred             cCC--CcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          153 RGN--IPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       153 ~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      .+.  ..++++||++|.|++++++++.+.+..
T Consensus       151 lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          151 VGIDATDAVRCSAKTGVGVQDVLERLVRDIPP  182 (599)
T ss_dssp             TCCCCTTCEEECTTTCTTHHHHHHHHHHHSCC
T ss_pred             hCCCcceEEEeecccCCCchhHHHHHhhcCCC
Confidence            441  359999999999999999999988754

>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=99.89  E-value=1.9e-22  Score=159.66  Aligned_cols=163  Identities=21%  Similarity=0.180  Sum_probs=107.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc----------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG----------   78 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----------   78 (210)
                      ...++|+++|++|||||||+|+|++.... ....++++.+.....+..++.  .+.+|||+|........          
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHH
Confidence            45799999999999999999999987642 234455556665666777775  57899999974332211          


Q ss_pred             --cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH-HHHH---H
Q 028305           79 --SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL-EWCA---Y  152 (210)
Q Consensus        79 --~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~-~~~~---~  152 (210)
                        ..+++.+|++++++|+++..+.... .+...+...       +.|+++|+||+|+.+.  .....++.. .+.+   .
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~~-------~~~~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~  325 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMERR-------GRASVVVFNKWDLVVH--REKRYDEFTKLFREKLYF  325 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHHT-------TCEEEEEEECGGGSTT--GGGCHHHHHHHHHHHCGG
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHHc-------CCCEEEEEECccCCCc--hhhHHHHHHHHHHHHhcc
Confidence              2346678999999999886655442 222222221       6799999999999754  222222222 2222   2


Q ss_pred             cCCCcEEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          153 RGNIPYFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       153 ~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ....+++++||++|.|++++|+.+.+.+.+..
T Consensus       326 ~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~  357 (439)
T 1mky_A          326 IDYSPLIFTSADKGWNIDRMIDAMNLAYASYT  357 (439)
T ss_dssp             GTTSCEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence            23478999999999999999999998876653

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.89  E-value=1.5e-23  Score=156.44  Aligned_cols=164  Identities=16%  Similarity=0.198  Sum_probs=94.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC-Ccc-------cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc-----
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQY-------KATIGADFVTKELQMDDKLVTLQIWDTAGQERF-----   74 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----   74 (210)
                      ++...++|+|+|.+|+|||||+|+|++.... ..+       .++.+.+.....+..++..+.+.+|||||..+.     
T Consensus         4 ~~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~   83 (274)
T 3t5d_A            4 GSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSN   83 (274)
T ss_dssp             ---CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTT
T ss_pred             cCccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchh
Confidence            4556899999999999999999998765543 232       455666666666666666679999999997322     


Q ss_pred             --cccc-------cccc-------------cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           75 --QSLG-------SAFY-------------RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        75 --~~~~-------~~~~-------------~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                        ..+.       ..++             ..+|+++++++.+.......-..++..+..        ++|+++|+||+|
T Consensus        84 ~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~--------~~pvi~V~nK~D  155 (274)
T 3t5d_A           84 CWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE--------KVNIIPLIAKAD  155 (274)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT--------TSCEEEEESSGG
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc--------cCCEEEEEeccC
Confidence              1111       1122             237799999977653222222334444422        679999999999


Q ss_pred             CCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +..........+.+...+...+ +.++.+|+.++.|+++++++|.+.+
T Consensus       156 ~~~~~e~~~~~~~i~~~l~~~~-i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          156 TLTPEECQQFKKQIMKEIQEHK-IKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             GSCHHHHHHHHHHHHHHHHHTT-CCCCCC-----------CHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHHHHHcC-CeEEcCCCCCChhHHHHHHHHhcCC
Confidence            8653222333344555555556 7899999999999999999988764

>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=2.5e-22  Score=148.76  Aligned_cols=170  Identities=16%  Similarity=0.219  Sum_probs=107.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc-CCCcccce-eeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc--------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK-FSQQYKAT-IGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG--------   78 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------   78 (210)
                      ....++|+|+|++|+|||||+++|++.. +.....++ ++..........++  ..+.+|||||+..+....        
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            4467999999999999999999999876 43333333 44444444555555  569999999977654322        


Q ss_pred             ---cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe-cCCCCCCCCccc----chHHHHHHH
Q 028305           79 ---SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN-KIDTDGGSSRVV----PQKKALEWC  150 (210)
Q Consensus        79 ---~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~-K~D~~~~~~~~~----~~~~~~~~~  150 (210)
                         ..+++.+|++++|+|+++.....  ..++..+.......  ...|.++|+| |+|+........    ..+++..++
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~--~~~~~~l~~~~~~~--~~~~~i~vv~nK~Dl~~~~~~~~i~~~~~~~~~~~~  172 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQD--QQAAQRVKEIFGED--AMGHTIVLFTHKEDLNGGSLMDYMHDSDNKALSKLV  172 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHH--HHHHHHHHHHHCGG--GGGGEEEEEECGGGGTTCCHHHHHHHCCCHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHH--HHHHHHHHHHhCch--hhccEEEEEEcccccCCccHHHHHHhcchHHHHHHH
Confidence               22568899999999998622211  12223333321110  0236666666 999974310000    013344455


Q ss_pred             HHcCCCc--E--EEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          151 AYRGNIP--Y--FETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       151 ~~~~~~~--~--~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      ...+...  +  +++||++|.|++++|++|.+.+....
T Consensus       173 ~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          173 AACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             HHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhCC
Confidence            5554211  2  78999999999999999999887643

>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=7.4e-22  Score=152.14  Aligned_cols=163  Identities=19%  Similarity=0.122  Sum_probs=109.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------ccccccccccC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------FQSLGSAFYRG   84 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~~~   84 (210)
                      .|+++|++|+|||||+|+|.+........++.+.+.....+.+++  ..+.+|||+|...         +... ...+..
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~~  257 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAKY  257 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHHh
Confidence            499999999999999999998776444445555566667777777  4689999999622         2222 234678


Q ss_pred             CcEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-C-CCcEEE
Q 028305           85 ADCCVLVYDVNVQK--TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-G-NIPYFE  160 (210)
Q Consensus        85 ~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~  160 (210)
                      +|++++|+|++++.  ....+..|...+.....    .+.|+++|+||+|+.+.. .....+.+..++... . ..++++
T Consensus       258 aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~----~~~p~ilV~NK~Dl~~~~-~~~~~~~~~~l~~~l~~~~~~~~~  332 (364)
T 2qtf_A          258 SDALILVIDSTFSENLLIETLQSSFEILREIGV----SGKPILVTLNKIDKINGD-LYKKLDLVEKLSKELYSPIFDVIP  332 (364)
T ss_dssp             SSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTC----CSCCEEEEEECGGGCCSC-HHHHHHHHHHHHHHHCSCEEEEEE
T ss_pred             CCEEEEEEECCCCcchHHHHHHHHHHHHHHhCc----CCCCEEEEEECCCCCCch-HHHHHHHHHHHHHHhcCCCCcEEE
Confidence            99999999999876  55555556555544322    267999999999997542 111112232333443 2 246899


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhcc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +||++|.|++++++.|.+.+....
T Consensus       333 ~SA~~g~gi~~L~~~I~~~l~~~~  356 (364)
T 2qtf_A          333 ISALKRTNLELLRDKIYQLATQLS  356 (364)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             EECCCCcCHHHHHHHHHHHhcccC
Confidence            999999999999999998776543

>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=99.89  E-value=4.8e-24  Score=168.53  Aligned_cols=164  Identities=15%  Similarity=0.166  Sum_probs=107.5

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhC--cCCCc-----------------------------ccceeeeEEEEEEEEe
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYN--KFSQQ-----------------------------YKATIGADFVTKELQM   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~   56 (210)
                      .....++|+++|++++|||||+++|+..  .+...                             ...+.+++.....+..
T Consensus         2 ~~k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~   81 (435)
T 1jny_A            2 SQKPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET   81 (435)
T ss_dssp             --CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC
T ss_pred             CCCCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEec
Confidence            3457899999999999999999999864  22211                             0123333333333333


Q ss_pred             CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCC-CEEEEEecCCCCC
Q 028305           57 DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC-PFVLLGNKIDTDG  135 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~-p~ilv~~K~D~~~  135 (210)
                        ....+.+|||||+.+|...+..+++.+|++|+|+|+++ .+|+....|..+...+.......++ |+++|+||+|+.+
T Consensus        82 --~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A           82 --KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             --SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             --CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence              34679999999999999888999999999999999998 6666443322222211100000133 6999999999976


Q ss_pred             CCC----cccchHHHHHHHHHcC----CCcEEEecCCCCCChHHHHH
Q 028305          136 GSS----RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       136 ~~~----~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ...    .....+++..++...+    ..+++++||++|.|+.++++
T Consensus       159 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          159 PPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             ccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            311    1334566777777665    36799999999999986654

>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=99.88  E-value=2.7e-21  Score=141.52  Aligned_cols=170  Identities=16%  Similarity=0.162  Sum_probs=107.4

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccc--eeeeEEEEEEEEeCCeEEEEEEEeCCCcc-----------c
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKA--TIGADFVTKELQMDDKLVTLQIWDTAGQE-----------R   73 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----------~   73 (210)
                      ......++|+|+|++|+|||||+++|++..+.....+  +.+..........++  ..+.+|||||..           .
T Consensus        24 ~~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~  101 (239)
T 3lxx_A           24 EPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKE  101 (239)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHH
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHH
Confidence            3456789999999999999999999998877644444  444555555566666  468999999943           3


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----cchHHHHHH
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----VPQKKALEW  149 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----~~~~~~~~~  149 (210)
                      +.......++.+|++|+|+|+++....+  ..|+..+.......  ...|+++|+||+|+.......    ...+.+..+
T Consensus       102 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~--~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l  177 (239)
T 3lxx_A          102 IIRCILLTSPGPHALLLVVPLGRYTEEE--HKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDL  177 (239)
T ss_dssp             HHHHHHHTTTCCSEEEEEEETTCCSSHH--HHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHH
T ss_pred             HHHHHHhcCCCCcEEEEEeeCCCCCHHH--HHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHH
Confidence            4444445567789999999987643321  22222222211000  045999999999986542111    112456777


Q ss_pred             HHHcCCCcEEEecCCCC-----CChHHHHHHHHHHHHhc
Q 028305          150 CAYRGNIPYFETSAKED-----CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       150 ~~~~~~~~~~~~Sa~~~-----~~v~~~~~~l~~~~~~~  183 (210)
                      ++..+ ..++.+++..+     .++.++|..+.+.+.+.
T Consensus       178 ~~~~~-~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          178 MDIFG-DRYCALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             HHHHS-SSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHcC-CEEEEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            77777 57777776643     68999999888877654

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.88  E-value=1.8e-22  Score=162.23  Aligned_cols=120  Identities=17%  Similarity=0.202  Sum_probs=86.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCc------------------CCC----cccceeeeEEEEEEEEeCCeEEEEE
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNK------------------FSQ----QYKATIGADFVTKELQMDDKLVTLQ   64 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~------------------~~~----~~~~~~~~~~~~~~~~~~~~~~~~~   64 (210)
                      .......+|+|+|++|+|||||+++|+...                  ...    ....+.+.......+...+  ..+.
T Consensus         8 ~~~~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~   85 (528)
T 3tr5_A            8 KQTAMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD--YLIN   85 (528)
T ss_dssp             HHHHTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT--EEEE
T ss_pred             hhhhcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC--EEEE
Confidence            334568899999999999999999996211                  100    0012222222233344444  6799


Q ss_pred             EEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        65 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +|||||+.++......+++.+|++|+|+|+++.........| ..+...       ++|+++|+||+|+...
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~~~~-------~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           86 LLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVCRLR-------HTPIMTFINKMDRDTR  149 (528)
T ss_dssp             EECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHHHTT-------TCCEEEEEECTTSCCS
T ss_pred             EEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHHc-------CCCEEEEEeCCCCccc
Confidence            999999999999999999999999999999987766665444 333321       7899999999999654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.88  E-value=2.7e-23  Score=164.39  Aligned_cols=154  Identities=17%  Similarity=0.190  Sum_probs=100.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc--------ccccccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE--------RFQSLGSAFYR   83 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~~   83 (210)
                      ++|+++|.+|+|||||+|+|++..+. ....++++.+.........+  ..+.+|||||+.        .+......+++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   81 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD   81 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS--SCCEEEC---------CHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC--ceEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            68999999999999999999987664 23334444454444444444  569999999975        45566677789


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|++++|+|..++.+...  .++..+.+.      .++|+++|+||+|+.....      +...+. ..+...++++||
T Consensus        82 ~ad~il~vvD~~~~~~~~d--~~~~~~l~~------~~~pvilv~NK~D~~~~~~------~~~~~~-~lg~~~~~~iSA  146 (436)
T 2hjg_A           82 EADVIIFMVNGREGVTAAD--EEVAKILYR------TKKPVVLAVNKLDNTEMRA------NIYDFY-SLGFGEPYPISG  146 (436)
T ss_dssp             HCSEEEEEEETTTCSCHHH--HHHHHHHTT------CCSCEEEEEECCCC-----------CCCSSG-GGSSCCCEECBT
T ss_pred             hCCEEEEEEeCCCCCCHHH--HHHHHHHHH------cCCCEEEEEECccCccchh------hHHHHH-HcCCCCeEEEeC
Confidence            9999999999998766543  233333321      2779999999999865311      111122 234347899999


Q ss_pred             CCCCChHHHHHHHHHHHHhc
Q 028305          164 KEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ++|.|+.++++++.+.+.+.
T Consensus       147 ~~g~gv~~L~~~i~~~l~~~  166 (436)
T 2hjg_A          147 THGLGLGDLLDAVAEHFKNI  166 (436)
T ss_dssp             TTTBTHHHHHHHHHHTGGGC
T ss_pred             cCCCChHHHHHHHHHhcCcc
Confidence            99999999999999887643

>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=3.6e-22  Score=159.74  Aligned_cols=156  Identities=18%  Similarity=0.187  Sum_probs=100.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   57 (210)
                      ....++|+++|.+++|||||+++|+.....                               .....+.+.+.....+.. 
T Consensus        30 ~k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-  108 (483)
T 3p26_A           30 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-  108 (483)
T ss_dssp             SCCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEEC-
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEec-
Confidence            356799999999999999999999755111                               111122333333333333 


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHH-----HHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES-----LQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~-----~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                       ....+.+|||||++++......+++.+|++|+|+|++++.++..     ...+...+.....     ..|+++|+||+|
T Consensus       109 -~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~-----~~~iIvviNK~D  182 (483)
T 3p26_A          109 -HRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLG-----IHNLIIAMNKMD  182 (483)
T ss_dssp             -SSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTT-----CCCEEEEEECGG
T ss_pred             -CCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcC-----CCcEEEEEECcC
Confidence             34679999999999999999999999999999999998654322     1111122222221     246999999999


Q ss_pred             CCCCCC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          133 TDGGSS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       133 ~~~~~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      +.+...  .....+++..++...+    ..+++++||++|.|+.+
T Consensus       183 l~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          183 NVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             cccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            975311  1122334444444443    26799999999999985

>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=8.8e-23  Score=144.59  Aligned_cols=119  Identities=14%  Similarity=0.174  Sum_probs=87.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCC---cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccC-
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ---QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRG-   84 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~-   84 (210)
                      ....++|+|+|++|||||||+++|.+..+..   ...++.+.+         .....+.+|||||+..+...+..++.. 
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~---------~~~~~~~l~Dt~G~~~~~~~~~~~~~~~  115 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD---------YDGSGVTLVDFPGHVKLRYKLSDYLKTR  115 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------C---------CCCTTCSEEEETTCCBSSCCHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeee---------ecCCeEEEEECCCCchHHHHHHHHHHhh
Confidence            3567899999999999999999999887643   122222111         133568999999999888777777765 


Q ss_pred             ---CcEEEEEEECC-ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           85 ---ADCCVLVYDVN-VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        85 ---~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                         +|++++|+|++ ++.++..+..|+..+..........++|+++|+||+|+.+.
T Consensus       116 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  171 (193)
T 2ged_A          116 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  171 (193)
T ss_dssp             GGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             cccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCC
Confidence               89999999999 88999998888877765421101126899999999999765

>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=2.3e-22  Score=157.21  Aligned_cols=161  Identities=16%  Similarity=0.084  Sum_probs=111.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc-------CCC---------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK-------FSQ---------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF   74 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   74 (210)
                      +.++|+++|++++|||||+++|.+..       +..         +...+.+++...  ..+......+.+|||||+.+|
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~--~~~~~~~~~~~iiDtpG~~~f   79 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAH--VEYSTAARHYAHTDCPGHADY   79 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEE--EEEECSSCEEEEEECSSHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeee--EEeccCCeEEEEEECCChHHH
Confidence            56899999999999999999998631       110         012223333322  233333467999999999999


Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHHHHHH
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALEWCAY  152 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~~~~~  152 (210)
                      ......+++.+|++|+|+|+++.........| ..+...       ++| +++|+||+|+.+... .+...+++..++..
T Consensus        80 ~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~~-------~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~  151 (397)
T 1d2e_A           80 VKNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQI-------GVEHVVVYVNKADAVQDSEMVELVELEIRELLTE  151 (397)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHHT-------TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHHc-------CCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHH
Confidence            88888889999999999999986544433333 333221       678 789999999975211 12234566777776


Q ss_pred             cC----CCcEEEecCCCCCC----------hHHHHHHHHHHHH
Q 028305          153 RG----NIPYFETSAKEDCN----------IDEAFLCVAEIAL  181 (210)
Q Consensus       153 ~~----~~~~~~~Sa~~~~~----------v~~~~~~l~~~~~  181 (210)
                      .+    ..+++++||++|.|          +.++++.|.+.+.
T Consensus       152 ~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          152 FGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             TTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             cCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence            65    36899999999765          7788888776554

>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=99.87  E-value=3.7e-22  Score=150.86  Aligned_cols=130  Identities=15%  Similarity=0.124  Sum_probs=99.0

Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhcCCCCCCC
Q 028305           52 KELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN----------VQKTFESLQNWREEFLKQADPGEHEA  121 (210)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~~~~~~~~  121 (210)
                      ..+..++  +.+.+||++|++.++..+..++++++++|+|+|++          +..++.....|+..+....   ...+
T Consensus       160 ~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~---~~~~  234 (327)
T 3ohm_A          160 YPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYP---WFQN  234 (327)
T ss_dssp             EEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSG---GGTT
T ss_pred             EEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhh---ccCC
Confidence            3344444  88999999999999999999999999999999765          5667777777777765432   1237


Q ss_pred             CCEEEEEecCCCCCCC--------------CcccchHHHHHHHH---------HcCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          122 CPFVLLGNKIDTDGGS--------------SRVVPQKKALEWCA---------YRGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       122 ~p~ilv~~K~D~~~~~--------------~~~~~~~~~~~~~~---------~~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      +|+++++||+|+.+..              ......+++..++.         ....+.+++|||+++.||+++|..+.+
T Consensus       235 ~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~  314 (327)
T 3ohm_A          235 SSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKD  314 (327)
T ss_dssp             CEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             ceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHH
Confidence            8999999999985320              01345666766642         112367899999999999999999999


Q ss_pred             HHHhcccc
Q 028305          179 IALKNEHK  186 (210)
Q Consensus       179 ~~~~~~~~  186 (210)
                      .+++.+.+
T Consensus       315 ~Il~~~l~  322 (327)
T 3ohm_A          315 TILQLNLK  322 (327)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHhHH
Confidence            99987664

>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=99.87  E-value=4.8e-24  Score=169.49  Aligned_cols=157  Identities=22%  Similarity=0.232  Sum_probs=108.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +++.+|+++|++++|||||+++|....+.....++.+.+.....+..++  ..+.+|||||++.|...+...+..+|+++
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            4578999999999999999999987665544334443333222333333  46899999999999999999999999999


Q ss_pred             EEEECCCh---hhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchH--HHHHHHHHc-CCCcEEEecC
Q 028305           90 LVYDVNVQ---KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK--KALEWCAYR-GNIPYFETSA  163 (210)
Q Consensus        90 ~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~--~~~~~~~~~-~~~~~~~~Sa  163 (210)
                      +|+|+++.   .+.+.+    ..+...       ++|+++++||+|+.+........+  +...+...+ +..+++++||
T Consensus        80 LVVda~~g~~~qT~e~l----~~~~~~-------~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSA  148 (501)
T 1zo1_I           80 LVVAADDGVMPQTIEAI----QHAKAA-------QVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSA  148 (501)
T ss_dssp             EEEETTTBSCTTTHHHH----HHHHHT-------TCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCT
T ss_pred             EEeecccCccHHHHHHH----HHHHhc-------CceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEee
Confidence            99999884   333332    222211       779999999999975321111110  000011111 2368999999


Q ss_pred             CCCCChHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEI  179 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~  179 (210)
                      ++|.|++++|+++...
T Consensus       149 ktG~gI~eLle~I~~~  164 (501)
T 1zo1_I          149 KAGTGIDELLDAILLQ  164 (501)
T ss_dssp             TTCTTCTTHHHHTTTT
T ss_pred             eeccCcchhhhhhhhh
Confidence            9999999999998753

>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=7.5e-22  Score=160.43  Aligned_cols=163  Identities=25%  Similarity=0.240  Sum_probs=107.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeC----------------CeEEEEEEEeCCCccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMD----------------DKLVTLQIWDTAGQER   73 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~g~~~   73 (210)
                      .+.++|+++|++++|||||+++|.+..+......+.+.+........+                .....+.+|||||+.+
T Consensus         3 ~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~   82 (594)
T 1g7s_A            3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (594)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHH
Confidence            356899999999999999999998765543221111111111111100                0112589999999999


Q ss_pred             ccccccccccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc----------
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV----------  140 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~----------  140 (210)
                      |...+..+++.+|++|+|+|+++   +.+++.+..    +..       .++|+++|+||+|+.+.....          
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~-------~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa  151 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM-------YRTPFVVAANKIDRIHGWRVHEGRPFMETFS  151 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH-------TTCCEEEEEECGGGSTTCCCCTTCCHHHHHT
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH-------cCCeEEEEecccccccccccccCCchHHHHH
Confidence            99999999999999999999998   555554432    222       178999999999996421100          


Q ss_pred             --------cchH---HHHHHHHHc--------------CCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          141 --------VPQK---KALEWCAYR--------------GNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       141 --------~~~~---~~~~~~~~~--------------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                              ...+   +........              ...+++++||++|.|+++++++|...+...
T Consensus       152 ~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          152 KQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence                    0000   111112211              224799999999999999999999887644

>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=1.1e-21  Score=150.20  Aligned_cols=130  Identities=14%  Similarity=0.157  Sum_probs=101.0

Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhcCCCCCCC
Q 028305           52 KELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNV----------QKTFESLQNWREEFLKQADPGEHEA  121 (210)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~~~~~~~~  121 (210)
                      ..+.++  .+.+.+||++|++.++..+..++++++++|+|+|+++          ..++.....|+..+.....   ..+
T Consensus       186 ~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~---~~~  260 (353)
T 1cip_A          186 THFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKW---FTD  260 (353)
T ss_dssp             EEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGG---GTT
T ss_pred             EEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCcc---ccC
Confidence            334444  4789999999999999999999999999999999999          4678888888887765321   127


Q ss_pred             CCEEEEEecCCCCCCC-------------CcccchHHHHHHHHH----------cCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          122 CPFVLLGNKIDTDGGS-------------SRVVPQKKALEWCAY----------RGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       122 ~p~ilv~~K~D~~~~~-------------~~~~~~~~~~~~~~~----------~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      +|++||+||+|+.+..             ......+++..++..          ...+.+++|||++|.||+++|+++.+
T Consensus       261 ~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~  340 (353)
T 1cip_A          261 TSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTD  340 (353)
T ss_dssp             SEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             CcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHH
Confidence            8999999999984210             002456777777762          23478999999999999999999999


Q ss_pred             HHHhcccc
Q 028305          179 IALKNEHK  186 (210)
Q Consensus       179 ~~~~~~~~  186 (210)
                      .+.+.+.+
T Consensus       341 ~i~~~~l~  348 (353)
T 1cip_A          341 VIIKNNLK  348 (353)
T ss_dssp             HHHHHC--
T ss_pred             HHHHHHHH
Confidence            99877653

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.87  E-value=5.5e-22  Score=153.27  Aligned_cols=150  Identities=13%  Similarity=-0.021  Sum_probs=108.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      +|+++|++++|||||+++|+        ..+.+++.....+...  ...+.+|||||+++|.......++.+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~--~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKE--GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSS--SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecC--CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999998        2233333333333333  3569999999999998888888899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCE-EEEEe-cCCCCCCCCcccchHHHHHHHHHcC--CCcEEE--ecCCC--
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPF-VLLGN-KIDTDGGSSRVVPQKKALEWCAYRG--NIPYFE--TSAKE--  165 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~-ilv~~-K~D~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--~Sa~~--  165 (210)
                       +. ........++..+...       ++|. ++++| |+|+ +........+++..++...+  ..++++  +||++  
T Consensus        93 -~~-g~~~qt~e~~~~~~~~-------~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~  162 (370)
T 2elf_A           93 -PQ-GLDAHTGECIIALDLL-------GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKN  162 (370)
T ss_dssp             -TT-CCCHHHHHHHHHHHHT-------TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSS
T ss_pred             -CC-CCcHHHHHHHHHHHHc-------CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCc
Confidence             53 3344444554444332       5677 89999 9999 42111112345555555443  368999  99999  


Q ss_pred             -CCChHHHHHHHHHHHHhc
Q 028305          166 -DCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       166 -~~~v~~~~~~l~~~~~~~  183 (210)
                       |.|++++++.|.+.+...
T Consensus       163 ~g~gi~~L~~~l~~~~~~~  181 (370)
T 2elf_A          163 PFEGVDELKARINEVAEKI  181 (370)
T ss_dssp             TTTTHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhhcccc
Confidence             999999999999887643

>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=99.87  E-value=1.2e-22  Score=159.40  Aligned_cols=151  Identities=15%  Similarity=0.103  Sum_probs=104.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhC--------cCCCc---------ccceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYN--------KFSQQ---------YKATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~--------~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .....++|+++|++++|||||+++|.+.        .+...         ...+.+++.....  ++.....+.+|||||
T Consensus         7 ~~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~--~~~~~~~~~iiDtpG   84 (405)
T 2c78_A            7 RTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVE--YETAKRHYSHVDCPG   84 (405)
T ss_dssp             --CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEE--EECSSCEEEEEECCC
T ss_pred             CCCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeE--eccCCeEEEEEECCC
Confidence            4567899999999999999999999863        11110         1222333332223  333346789999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALE  148 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~  148 (210)
                      +++|......+++.+|++|+|+|+++...... ..++..+...       ++| +++|+||+|+.+... .+...+++..
T Consensus        85 ~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt-~~~l~~~~~~-------~ip~iivviNK~Dl~~~~~~~~~~~~~~~~  156 (405)
T 2c78_A           85 HADYIKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQV-------GVPYIVVFMNKVDMVDDPELLDLVEMEVRD  156 (405)
T ss_dssp             SGGGHHHHHHHHTTCSSEEEEEETTTCCCHHH-HHHHHHHHHT-------TCCCEEEEEECGGGCCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCEEEEEEECccccCcHHHHHHHHHHHHH
Confidence            99998888888999999999999988654333 4444444332       668 899999999975211 1223345666


Q ss_pred             HHHHcC----CCcEEEecCCCCCC
Q 028305          149 WCAYRG----NIPYFETSAKEDCN  168 (210)
Q Consensus       149 ~~~~~~----~~~~~~~Sa~~~~~  168 (210)
                      ++...+    ..+++++||++|.|
T Consensus       157 ~l~~~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          157 LLNQYEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             HHHHTTSCTTTSCEEECCHHHHHH
T ss_pred             HHHHhcccccCCCEEEccHHHhhh
Confidence            776665    36899999999987

>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=99.86  E-value=1.3e-22  Score=156.49  Aligned_cols=167  Identities=19%  Similarity=0.263  Sum_probs=90.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc-CCCcc--------cceeeeEEEEEEEEeCCeEEEEEEEeCCCc-------c
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK-FSQQY--------KATIGADFVTKELQMDDKLVTLQIWDTAGQ-------E   72 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~-~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~   72 (210)
                      +...++|+|+|++|+|||||+++|++.. +...+        .++.+.......+..++..+.+.+|||||+       +
T Consensus        34 ~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e  113 (361)
T 2qag_A           34 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD  113 (361)
T ss_dssp             HCCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC------------
T ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHH
Confidence            4567999999999999999999987543 22222        134444444444445666778999999998       5


Q ss_pred             ccccccc-------ccccCCcEE-----------EEEEECCC-hhhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           73 RFQSLGS-------AFYRGADCC-----------VLVYDVNV-QKTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        73 ~~~~~~~-------~~~~~~d~v-----------i~v~d~~~-~~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      .+..+..       .+++.++++           +++|++++ ..++..+. .|+..+    .    .++|+|+|+||+|
T Consensus       114 ~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~----~~~piIlV~NK~D  185 (361)
T 2qag_A          114 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----H----NKVNIVPVIAKAD  185 (361)
T ss_dssp             --CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----C----S-SCEEEEEECCS
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----c----cCCCEEEEEECCC
Confidence            5555544       444333221           24444443 33444433 333332    2    2789999999999


Q ss_pred             CCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +..........+++..++...+ ++++++||++|.+ ++.|..+.+.+.+..+
T Consensus       186 l~~~~ev~~~k~~i~~~~~~~~-i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip  236 (361)
T 2qag_A          186 TLTLKERERLKKRILDEIEEHN-IKIYHLPDAESDE-DEDFKEQTRLLKASIP  236 (361)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCC--CCSCCCC----------CHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHHHHHCC-CCEEeCCCcCCCc-chhHHHHHHHHHhcCC
Confidence            9754111112256666666666 7999999999999 9999999999877655

>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=1.3e-21  Score=154.68  Aligned_cols=156  Identities=16%  Similarity=0.176  Sum_probs=105.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC---Cc---------cc---------------------ceeeeEEEEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQ---------YK---------------------ATIGADFVTKELQ   55 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~---------~~---------------------~~~~~~~~~~~~~   55 (210)
                      ....++|+++|++++|||||+++|+.....   ..         ..                     .+.+++.....+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            456799999999999999999999855311   00         00                     1122222222233


Q ss_pred             eCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCC-CEEEEEecCCCC
Q 028305           56 MDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC-PFVLLGNKIDTD  134 (210)
Q Consensus        56 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~-p~ilv~~K~D~~  134 (210)
                      .+  ...+.+|||||+++|......++..+|++|+|+|+++...... ..++..+...       ++ |+++|+||+|+.
T Consensus       101 ~~--~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt-~~~l~~~~~~-------~~~~iIvviNK~Dl~  170 (434)
T 1zun_B          101 TA--KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASLL-------GIKHIVVAINKMDLN  170 (434)
T ss_dssp             CS--SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHHT-------TCCEEEEEEECTTTT
T ss_pred             cC--CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc-------CCCeEEEEEEcCcCC
Confidence            33  3679999999999998888888999999999999998643332 2333333221       33 699999999997


Q ss_pred             CCCCc--ccchHHHHHHHHHcC----CCcEEEecCCCCCChHHHHH
Q 028305          135 GGSSR--VVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       135 ~~~~~--~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      +....  ....++...+++..+    ..+++++||++|.|+.++++
T Consensus       171 ~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          171 GFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             TSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             cccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence            63211  123455666666655    26799999999999998543

>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=1.2e-22  Score=161.67  Aligned_cols=160  Identities=16%  Similarity=0.175  Sum_probs=94.2

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhC--cCCC-----------------------------cccceeeeEEEEEEEEe
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYN--KFSQ-----------------------------QYKATIGADFVTKELQM   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~   56 (210)
                      .....++|+++|++++|||||+++|+..  .+..                             +...+.+++.....+..
T Consensus        39 ~~k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~  118 (467)
T 1r5b_A           39 YGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET  118 (467)
T ss_dssp             SCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC
T ss_pred             cCCCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEec
Confidence            3467899999999999999999999742  2110                             00122233333233444


Q ss_pred             CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh---hHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCC
Q 028305           57 DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK---TFESLQNWREEFLKQADPGEHEACP-FVLLGNKID  132 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D  132 (210)
                      ++  ..+.+|||||+++|...+...+..+|++|+|+|+++..   +|+...++...+......    ++| +++|+||+|
T Consensus       119 ~~--~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~----~vp~iivviNK~D  192 (467)
T 1r5b_A          119 EH--RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ----GINHLVVVINKMD  192 (467)
T ss_dssp             SS--EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT----TCSSEEEEEECTT
T ss_pred             CC--eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHc----CCCEEEEEEECcc
Confidence            43  67999999999999999888999999999999999862   232212222222111111    667 999999999


Q ss_pred             CCCCCC----cccchHHHHHHHHHc-C-----CCcEEEecCCCCCChHHHH
Q 028305          133 TDGGSS----RVVPQKKALEWCAYR-G-----NIPYFETSAKEDCNIDEAF  173 (210)
Q Consensus       133 ~~~~~~----~~~~~~~~~~~~~~~-~-----~~~~~~~Sa~~~~~v~~~~  173 (210)
                      +.+...    .....+++..++... +     ..+++++||++|.|+.+++
T Consensus       193 l~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          193 EPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             STTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             CCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            964211    123344566666655 3     2569999999999998866

>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=99.85  E-value=8.6e-22  Score=156.41  Aligned_cols=155  Identities=17%  Similarity=0.233  Sum_probs=105.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC--cCCC-----------------------------cccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN--KFSQ-----------------------------QYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~   57 (210)
                      ....++|+++|++++|||||+++|++.  .+..                             +...+.+++.....+...
T Consensus         4 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~   83 (458)
T 1f60_A            4 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (458)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECS
T ss_pred             CCceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecC
Confidence            346799999999999999999999864  1110                             001223333323333333


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh---hHH---HHHHHHHHHHHhcCCCCCCCCC-EEEEEec
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK---TFE---SLQNWREEFLKQADPGEHEACP-FVLLGNK  130 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~---~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K  130 (210)
                        ...+.+|||||+.+|......++..+|++|+|+|+++..   +|+   ....++..+.. .      ++| +++|+||
T Consensus        84 --~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~-~------~v~~iivviNK  154 (458)
T 1f60_A           84 --KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT-L------GVRQLIVAVNK  154 (458)
T ss_dssp             --SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH-T------TCCEEEEEEEC
T ss_pred             --CceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH-c------CCCeEEEEEEc
Confidence              367999999999999988889999999999999998753   221   11222222221 1      555 9999999


Q ss_pred             CCCCCCCC--cccchHHHHHHHHHcCC----CcEEEecCCCCCChHHH
Q 028305          131 IDTDGGSS--RVVPQKKALEWCAYRGN----IPYFETSAKEDCNIDEA  172 (210)
Q Consensus       131 ~D~~~~~~--~~~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~v~~~  172 (210)
                      +|+.+...  .....+++..++...+.    .+++++||++|.|+.++
T Consensus       155 ~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          155 MDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             cccccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            99974211  12344566666666652    68999999999999755

>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=99.85  E-value=2.8e-21  Score=138.65  Aligned_cols=162  Identities=15%  Similarity=0.130  Sum_probs=101.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc----------cccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER----------FQSL   77 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~   77 (210)
                      ......+|+++|++|||||||+++|.+..+.....++.+.......+..++   .+.+|||||...          +...
T Consensus        22 ~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~   98 (210)
T 1pui_A           22 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRA   98 (210)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHH
Confidence            345678999999999999999999997764333333333333223333333   478999999742          2222


Q ss_pred             ccccc---cCCcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHH
Q 028305           78 GSAFY---RGADCCVLVYDVNVQKTFES--LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAY  152 (210)
Q Consensus        78 ~~~~~---~~~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~  152 (210)
                      ...++   ..++++++++|++++.+...  +..|...          .++|+++|+||+|+.+...++...+.+..++..
T Consensus        99 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~----------~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~  168 (210)
T 1pui_A           99 LGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD----------SNIAVLVLLTKADKLASGARKAQLNMVREAVLA  168 (210)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH----------TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH----------cCCCeEEEEecccCCCchhHHHHHHHHHHHHHh
Confidence            22333   46899999999988655432  2222221          167999999999987542222223455555554


Q ss_pred             cC-CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          153 RG-NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       153 ~~-~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      .+ ...++++|++++.|++++++.|.+.+.+
T Consensus       169 ~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          169 FNGDVQVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             GCSCEEEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             cCCCCceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            43 3568899999999999999999887644

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.1e-21  Score=160.19  Aligned_cols=158  Identities=20%  Similarity=0.222  Sum_probs=104.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-------------------------------cceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-------------------------------KATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~   57 (210)
                      ....++|+++|++|+|||||+++|++.......                               .++++++.....+...
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~  243 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  243 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC
Confidence            356899999999999999999999865322111                               1233333333334443


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhh---HHHHHHHHHHHHHhcCCCCCCC-CCEEEEEecCCC
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKT---FESLQNWREEFLKQADPGEHEA-CPFVLLGNKIDT  133 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~~~~~~~~~l~~~~~~~~~~~-~p~ilv~~K~D~  133 (210)
                        ...+.+|||||++++......+++.+|++|+|+|++++..   +....++...+......    + .|+|+|+||+|+
T Consensus       244 --~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l----gi~~iIVVvNKiDl  317 (611)
T 3izq_1          244 --RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL----GIHNLIIAMNKMDN  317 (611)
T ss_dssp             --SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT----TCCEEEEEEECTTT
T ss_pred             --CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc----CCCeEEEEEecccc
Confidence              3679999999999999999999999999999999987421   10011111111111111    3 359999999999


Q ss_pred             CCCCC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHHH
Q 028305          134 DGGSS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       134 ~~~~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~  172 (210)
                      .+...  .....+++..++...+    ..+++++||++|.|+.++
T Consensus       318 ~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          318 VDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             cchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            76311  1222344455555444    268999999999999976

>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=99.85  E-value=7.3e-21  Score=145.71  Aligned_cols=125  Identities=16%  Similarity=0.177  Sum_probs=95.3

Q ss_pred             eEEEEEEEeCCCcccccccccccccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEE
Q 028305           59 KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN----------VQKTFESLQNWREEFLKQADPGEHEACPFVLLG  128 (210)
Q Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~  128 (210)
                      ..+.+.+|||+|++.++..+..++++++++|+|||++          +..+++....|+..+.....   ..++|++||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~---~~~~piiLvg  257 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPC---FEKTSFMLFL  257 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGG---GSSCEEEEEE
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccc---cCCCeEEEEE
Confidence            5689999999999999999999999999999999998          77889998888888765321   1278999999


Q ss_pred             ecCCCCCCCC-------------------cccchHHHHHHHHH---------------cCCCcEEEecCCCCCChHHHHH
Q 028305          129 NKIDTDGGSS-------------------RVVPQKKALEWCAY---------------RGNIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       129 ~K~D~~~~~~-------------------~~~~~~~~~~~~~~---------------~~~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ||+|+.+...                   .....+++..++..               .....+++|||+++.||+++|+
T Consensus       258 NK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~  337 (354)
T 2xtz_A          258 NKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFK  337 (354)
T ss_dssp             ECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHH
T ss_pred             ECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHH
Confidence            9999843200                   00124556665432               1224468999999999999999


Q ss_pred             HHHHHHHhcccc
Q 028305          175 CVAEIALKNEHK  186 (210)
Q Consensus       175 ~l~~~~~~~~~~  186 (210)
                      ++.+.+.+.+.+
T Consensus       338 ~v~~~I~~~~l~  349 (354)
T 2xtz_A          338 LVDETLRRRNLL  349 (354)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999876653

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.84  E-value=5.9e-22  Score=161.43  Aligned_cols=153  Identities=18%  Similarity=0.188  Sum_probs=84.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC-------------------------------CCcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF-------------------------------SQQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   57 (210)
                      ....++|+++|++++|||||+++|+....                               .....++++++.....+.. 
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-  252 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-  252 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-
Confidence            45789999999999999999999963210                               0111233444444333333 


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh---hH---HHHHHHHHHHHHhcCCCCCCCCC-EEEEEec
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK---TF---ESLQNWREEFLKQADPGEHEACP-FVLLGNK  130 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K  130 (210)
                       ....+.||||||+.+|...+...++.+|++|+|+|++++.   .+   ......+..+.. .      ++| +|+|+||
T Consensus       253 -~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~-l------gip~iIvviNK  324 (592)
T 3mca_A          253 -DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA-L------GISEIVVSVNK  324 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH-S------SCCCEEEEEEC
T ss_pred             -CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH-c------CCCeEEEEEec
Confidence             3467999999999999999999999999999999998632   11   011111122221 1      555 9999999


Q ss_pred             CCCCCCCC--cccchHHHHHHH-HHcCC----CcEEEecCCCCCChH
Q 028305          131 IDTDGGSS--RVVPQKKALEWC-AYRGN----IPYFETSAKEDCNID  170 (210)
Q Consensus       131 ~D~~~~~~--~~~~~~~~~~~~-~~~~~----~~~~~~Sa~~~~~v~  170 (210)
                      +|+.+...  .....+++..++ ...+.    .+++++||++|.|+.
T Consensus       325 iDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          325 LDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             GGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            99975311  122234444444 33342    369999999999998

>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=99.84  E-value=7.1e-21  Score=161.79  Aligned_cols=166  Identities=14%  Similarity=0.065  Sum_probs=110.6

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCc-------CCC-------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNK-------FSQ-------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      .....++|+++|++++|||||+++|++..       +..       ......++++......++.....+.+|||||+++
T Consensus       292 ~~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHed  371 (1289)
T 3avx_A          292 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHAD  371 (1289)
T ss_dssp             CCCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHH
T ss_pred             ccCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHH
Confidence            45678999999999999999999998631       000       0011112222112223333446799999999999


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHHHHH
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALEWCA  151 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~~~~  151 (210)
                      |......+++.+|++|+|+|+++....+. ..++..+...       ++| +|+|+||+|+.+... .+...+++..++.
T Consensus       372 F~~~mi~gas~AD~aILVVDAtdGv~~QT-rEhL~ll~~l-------gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk  443 (1289)
T 3avx_A          372 YVKNMITGAAQMDGAILVVAATDGPMPQT-REHILLGRQV-------GVPYIIVFLNKCDMVDDEELLELVEMEVRELLS  443 (1289)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTTCSCTTH-HHHHHHHHHH-------TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCEEEEEEcCCccCcHHH-HHHHHHHHHc-------CCCeEEEEEeecccccchhhHHHHHHHHHHHHH
Confidence            98888888999999999999998643332 2333333332       668 799999999975311 1223456667777


Q ss_pred             HcC----CCcEEEecCCCC--------CChHHHHHHHHHHHH
Q 028305          152 YRG----NIPYFETSAKED--------CNIDEAFLCVAEIAL  181 (210)
Q Consensus       152 ~~~----~~~~~~~Sa~~~--------~~v~~~~~~l~~~~~  181 (210)
                      ..+    ..+++++||++|        .|+.++++.|.+.+.
T Consensus       444 ~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          444 QYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             HTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             hccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            665    368999999999        457777777766543

>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=99.84  E-value=1.7e-21  Score=154.98  Aligned_cols=156  Identities=17%  Similarity=0.162  Sum_probs=100.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC--------cccccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAG--------QERFQSLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g--------~~~~~~~~~~   80 (210)
                      ....+|+++|.+|||||||+|+|++..+. ....++.+.+...  .........+.+|||||        ++.+......
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~--~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~   98 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIY--SSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEI   98 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CEE--EECTTCSSCCEEECCCC------CCHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEE--EEEEECCceEEEEECCCCCCcchHHHHHHHHHHHh
Confidence            34679999999999999999999987654 2223334333333  33333446799999999        6667777778


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      +++.+|++|+|+|..+.....  ..++..+.+.      .++|+++|+||+|+....      ....++. ..+...+++
T Consensus        99 ~~~~ad~il~VvD~~~~~~~~--d~~l~~~l~~------~~~pvilV~NK~D~~~~~------~~~~e~~-~lg~~~~~~  163 (456)
T 4dcu_A           99 AMDEADVIIFMVNGREGVTAA--DEEVAKILYR------TKKPVVLAVNKLDNTEMR------ANIYDFY-SLGFGEPYP  163 (456)
T ss_dssp             HHHHCSEEEEEEESSSCSCHH--HHHHHHHHTT------CCSCEEEEEECC---------------CCSG-GGSSSSEEE
T ss_pred             hHhhCCEEEEEEeCCCCCChH--HHHHHHHHHH------cCCCEEEEEECccchhhh------hhHHHHH-HcCCCceEE
Confidence            889999999999987643322  2333333322      278999999999986431      1111111 223346789


Q ss_pred             ecCCCCCChHHHHHHHHHHHHh
Q 028305          161 TSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +||++|.|+.++++.+.+.+..
T Consensus       164 iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          164 ISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             CCTTTCTTHHHHHHHHHTTGGG
T ss_pred             eecccccchHHHHHHHHhhccc
Confidence            9999999999999999887654

>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=99.83  E-value=7e-20  Score=151.81  Aligned_cols=126  Identities=21%  Similarity=0.270  Sum_probs=91.2

Q ss_pred             CCccccccccceEEEEEEcCCCCcHHHHHHHHhhCc--CC------C----------cccceeeeEEEEEEEEeCCeEEE
Q 028305            1 MDISVNMKRRNLLKVIVLGDSGVGKTSLMNQYVYNK--FS------Q----------QYKATIGADFVTKELQMDDKLVT   62 (210)
Q Consensus         1 ~~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~------~----------~~~~~~~~~~~~~~~~~~~~~~~   62 (210)
                      |.+.+........+|+|+|++|+|||||+++|+...  +.      .          ....+.++......+...  ...
T Consensus         1 M~~~l~~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~--~~~   78 (691)
T 1dar_A            1 MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWK--DHR   78 (691)
T ss_dssp             CCTTCCCCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEET--TEE
T ss_pred             CCccccCccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEEC--CeE
Confidence            677777777889999999999999999999998421  10      0          001112222222233333  367


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +.+|||||+.++......+++.+|++|+|+|.++.........|.. +...       ++|+++|+||+|+...
T Consensus        79 i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~~-------~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           79 INIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY-------KVPRIAFANKMDKTGA  144 (691)
T ss_dssp             EEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT-------TCCEEEEEECTTSTTC
T ss_pred             EEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHHc-------CCCEEEEEECCCcccC
Confidence            9999999999998889999999999999999999877777655543 3322       7899999999998754

>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=5.8e-21  Score=144.83  Aligned_cols=123  Identities=13%  Similarity=0.187  Sum_probs=95.1

Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVN----------VQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                      .+.+.+||++|++.++..+..++++++++|+|+|++          +..++.....|+..+.....   ..++|+++++|
T Consensus       160 ~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~---~~~~piiLv~N  236 (340)
T 4fid_A          160 DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEF---LKGAVKLIFLN  236 (340)
T ss_dssp             SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGG---GTTSEEEEEEE
T ss_pred             eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhc---cCCCeEEEEEE
Confidence            478999999999999999999999999999999998          67888888888887765422   12789999999


Q ss_pred             cCCCCCCC-------------CcccchHHHHHHHH-Hc-------------------------CCCcEEEecCCCCCChH
Q 028305          130 KIDTDGGS-------------SRVVPQKKALEWCA-YR-------------------------GNIPYFETSAKEDCNID  170 (210)
Q Consensus       130 K~D~~~~~-------------~~~~~~~~~~~~~~-~~-------------------------~~~~~~~~Sa~~~~~v~  170 (210)
                      |+|+.+..             ......+++..++. ..                         ..+.+++|||+++.||+
T Consensus       237 K~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~  316 (340)
T 4fid_A          237 KMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIK  316 (340)
T ss_dssp             CHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHH
T ss_pred             CchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHH
Confidence            99984310             00012444433332 22                         23678999999999999


Q ss_pred             HHHHHHHHHHHhcccc
Q 028305          171 EAFLCVAEIALKNEHK  186 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~~  186 (210)
                      .+|..+.+.+++ +.+
T Consensus       317 ~vF~~v~~~Il~-~l~  331 (340)
T 4fid_A          317 RVFMLAVDVIMK-NMA  331 (340)
T ss_dssp             HHHHHHHHHHHH-HHH
T ss_pred             HHHHHHHHHHHH-HHH
Confidence            999999999998 543

>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=147.60  Aligned_cols=162  Identities=14%  Similarity=0.145  Sum_probs=100.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc------ccceee----------------------eE------------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ------YKATIG----------------------AD------------   48 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~------~~~~~~----------------------~~------------   48 (210)
                      ....++|+|+|.+|+|||||+|+|++..+.+.      ..++..                      .+            
T Consensus        23 ~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~  102 (299)
T 2aka_B           23 DLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDR  102 (299)
T ss_dssp             TCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHH
Confidence            34578999999999999999999998876421      122210                      00            


Q ss_pred             -----------EEEEEEEeCCeEEEEEEEeCCCcc-------------cccccccccccCCcEEE-EEEECCChhhHHHH
Q 028305           49 -----------FVTKELQMDDKLVTLQIWDTAGQE-------------RFQSLGSAFYRGADCCV-LVYDVNVQKTFESL  103 (210)
Q Consensus        49 -----------~~~~~~~~~~~~~~~~i~D~~g~~-------------~~~~~~~~~~~~~d~vi-~v~d~~~~~s~~~~  103 (210)
                                 .....+... ....+.+|||||..             .+......+++.++.++ +|+|.++..+....
T Consensus       103 i~g~~~gi~~~~~~~~~~~~-~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~  181 (299)
T 2aka_B          103 VTGTNKGISPVPINLRVYSP-HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  181 (299)
T ss_dssp             HCSSTTCCCSCCEEEEEEET-TCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH
T ss_pred             hcccCCCccccceEEEEeCC-CCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH
Confidence                       000000000 02569999999964             23445567788888766 79999875443332


Q ss_pred             HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc--CCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          104 QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR--GNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       104 ~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ..+...+..       .+.|+++|+||+|+.+...  ...+.........  +..+++++||++|.|++++++++.+..
T Consensus       182 ~~~~~~~~~-------~~~~~i~V~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          182 LKIAKEVDP-------QGQRTIGVITKLDLMDEGT--DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             HHHHHHHCT-------TCSSEEEEEECGGGSCTTC--CCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             HHHHHHhCC-------CCCeEEEEEEccccCCCCc--hHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            233333321       2679999999999975421  1112211100011  223678999999999999999998743

>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=2.4e-19  Score=139.93  Aligned_cols=164  Identities=15%  Similarity=0.089  Sum_probs=111.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc----cccccc---cccCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF----QSLGSA---FYRGA   85 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~~---~~~~~   85 (210)
                      ..|+|+|++|||||||+++|.+........+.++.......+..++ ...+.+||+||..+.    ..+...   .+..+
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era  236 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIART  236 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHH
Confidence            3589999999999999999987643211112222223333344443 245889999996431    112222   24568


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC
Q 028305           86 DCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        86 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  165 (210)
                      +.+++++|++ ...+..+..+..++..+....  ...|.++|+||+|+...    ...+++...+...+ ..++.+||++
T Consensus       237 ~~lL~vvDls-~~~~~~ls~g~~el~~la~aL--~~~P~ILVlNKlDl~~~----~~~~~l~~~l~~~g-~~vi~iSA~~  308 (416)
T 1udx_A          237 RVLLYVLDAA-DEPLKTLETLRKEVGAYDPAL--LRRPSLVALNKVDLLEE----EAVKALADALAREG-LAVLPVSALT  308 (416)
T ss_dssp             SEEEEEEETT-SCHHHHHHHHHHHHHHHCHHH--HHSCEEEEEECCTTSCH----HHHHHHHHHHHTTT-SCEEECCTTT
T ss_pred             HhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHh--hcCCEEEEEECCChhhH----HHHHHHHHHHHhcC-CeEEEEECCC
Confidence            9999999998 566777777777766542100  14699999999998752    23344444444444 7899999999


Q ss_pred             CCChHHHHHHHHHHHHhccc
Q 028305          166 DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +.|+++++++|.+.+.+...
T Consensus       309 g~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          309 GAGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             CTTHHHHHHHHHHHHHTSCC
T ss_pred             ccCHHHHHHHHHHHHHhccc
Confidence            99999999999999987654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.81  E-value=6.6e-19  Score=130.49  Aligned_cols=122  Identities=20%  Similarity=0.163  Sum_probs=85.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccccc-----
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYR-----   83 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-----   83 (210)
                      ...++|+++|.+|+|||||+++|++.... ....++.+..........++  ..+.+|||||+.++......+++     
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            46899999999999999999999987753 22223333444445555655  57999999999887666554443     


Q ss_pred             ----CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           84 ----GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        84 ----~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                          .+|++++|++++..........|+..+.......  ...|+++|+||+|+.+
T Consensus       112 l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~--~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKE--IWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             TTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGG--GGGGEEEEEECTTCCC
T ss_pred             HhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchh--hhcCEEEEEeCcccCC
Confidence                7899999999987542222245666666543321  0238999999999854

>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=99.80  E-value=2.4e-20  Score=140.61  Aligned_cols=167  Identities=19%  Similarity=0.256  Sum_probs=88.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC-cCCCccc--------ceeeeEEEEEEEEeCCeEEEEEEEeCCCc-------c
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN-KFSQQYK--------ATIGADFVTKELQMDDKLVTLQIWDTAGQ-------E   72 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~-~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~   72 (210)
                      +...++|+|+|++|+|||||+++|.+. .++....        ++.............+....+.+||++|.       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            456799999999999999999998865 3332221        11111111122233444578999999997       4


Q ss_pred             ccccccc-------ccccC-------------CcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           73 RFQSLGS-------AFYRG-------------ADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        73 ~~~~~~~-------~~~~~-------------~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      .+.....       .+++.             +++++++.+.+. .+++....  ..+... ..    +.|+++|+||+|
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~--~~l~~l-~~----~~~iilV~~K~D  166 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDV--AFMKAI-HN----KVNIVPVIAKAD  166 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHH--HHHHHH-TT----TSCEEEEECCGG
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHH--HHHHHH-Hh----cCCEEEEEEeCC
Confidence            4444333       33222             344555544332 12333221  222222 21    579999999999


Q ss_pred             CCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      +..........+++..+++..+ +.++++||++| |++++|..+.+.+.+..+
T Consensus       167 l~~~~e~~~~~~~~~~~~~~~~-~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          167 TLTLKERERLKKRILDEIEEHN-IKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             GSCHHHHHHHHHHHHHHHHHTT-CCCCCCC----------CHHHHHHHHTTCS
T ss_pred             CCCHHHHHHHHHHHHHHHHHcC-CeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            9753222344567788888887 89999999999 999999999999876554

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.79  E-value=5.3e-19  Score=146.67  Aligned_cols=168  Identities=14%  Similarity=0.160  Sum_probs=107.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceee--------------eEE-------------------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIG--------------ADF-------------------------   49 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~--------------~~~-------------------------   49 (210)
                      ...++|+|+|.+|+|||||+|+|++..... ...+++.              ..+                         
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            468999999999999999999999876542 2222221              000                         


Q ss_pred             --------------EEEEEEeCCeE--EEEEEEeCCCccc---ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHH
Q 028305           50 --------------VTKELQMDDKL--VTLQIWDTAGQER---FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEF  110 (210)
Q Consensus        50 --------------~~~~~~~~~~~--~~~~i~D~~g~~~---~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l  110 (210)
                                    ....+......  ..+.+|||||...   .......+++.+|++++|+|.+++.+......|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                          00000000000  2489999999654   3345567788999999999999887777665554333


Q ss_pred             HHhcCCCCCCCCCEEEEEecCCCCCCC---Ccc--c---chHHHHHH----HHHc--------CCCcEEEecCC------
Q 028305          111 LKQADPGEHEACPFVLLGNKIDTDGGS---SRV--V---PQKKALEW----CAYR--------GNIPYFETSAK------  164 (210)
Q Consensus       111 ~~~~~~~~~~~~p~ilv~~K~D~~~~~---~~~--~---~~~~~~~~----~~~~--------~~~~~~~~Sa~------  164 (210)
                      ..       .+.|+++|+||+|+....   ...  .   ..+.+...    ....        ....++++||+      
T Consensus       227 ~~-------~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~  299 (695)
T 2j69_A          227 KG-------RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRR  299 (695)
T ss_dssp             TT-------SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHH
T ss_pred             Hh-------hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhh
Confidence            21       156899999999986431   000  0   00012111    1111        12469999999      


Q ss_pred             --------CCCChHHHHHHHHHHHHhcc
Q 028305          165 --------EDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       165 --------~~~~v~~~~~~l~~~~~~~~  184 (210)
                              ++.|+.+++..+.+.+....
T Consensus       300 ~~~~~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          300 LKNPQADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             HHCTTCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             ccCchhhhhccCHHHHHHHHHHHHHHhH
Confidence                    99999999999998776543

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.79  E-value=2.9e-18  Score=142.22  Aligned_cols=122  Identities=18%  Similarity=0.253  Sum_probs=86.3

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhh--CcCCC-----------cc-----cceeeeEEEEEEEEeCCeEEEEEEE
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVY--NKFSQ-----------QY-----KATIGADFVTKELQMDDKLVTLQIW   66 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~--~~~~~-----------~~-----~~~~~~~~~~~~~~~~~~~~~~~i~   66 (210)
                      ...+.....+|+|+|++|+|||||+++|+.  +.+..           .+     ..++++......+...+  ..+.+|
T Consensus         3 ~~~~~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~li   80 (693)
T 2xex_A            3 REFSLEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNII   80 (693)
T ss_dssp             CSSCSTTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEE
T ss_pred             CcCCcccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEE
Confidence            344556789999999999999999999984  22210           00     11112222222333443  679999


Q ss_pred             eCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           67 DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        67 D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ||||+.++......+++.+|++|+|+|.++.........|. .+...       ++|+++|+||+|+...
T Consensus        81 DTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~-~~~~~-------~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           81 DTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWR-QATTY-------GVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHH-HHHHT-------TCCEEEEEECTTSTTC
T ss_pred             ECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHH-HHHHc-------CCCEEEEEECCCcccc
Confidence            99999999888889999999999999999877776655553 33332       7799999999999754

>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=99.78  E-value=9.3e-18  Score=139.35  Aligned_cols=121  Identities=19%  Similarity=0.180  Sum_probs=84.5

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCc--CCC-----------cc-----cceeeeEEEEEEEEe-----CCeEEEEE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNK--FSQ-----------QY-----KATIGADFVTKELQM-----DDKLVTLQ   64 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~-----------~~-----~~~~~~~~~~~~~~~-----~~~~~~~~   64 (210)
                      ......+|+|+|+.|+|||||+++|+...  +..           ..     ..+.++......+..     ++..+.++
T Consensus         6 ~~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~   85 (704)
T 2rdo_7            6 PIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRIN   85 (704)
T ss_pred             CcccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEE
Confidence            34568999999999999999999997431  110           00     111222222222222     23347899


Q ss_pred             EEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        65 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      +|||||+.+|...+..+++.+|++|+|+|+++.........|. .....       ++|+++|+||+|+...
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~-~~~~~-------~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           86 IIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR-QANKY-------KVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHH-HHHHc-------CCCEEEEEeCCCcccc
Confidence            9999999999888899999999999999999876555544443 22221       7899999999998654

>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=99.78  E-value=1.8e-18  Score=142.91  Aligned_cols=116  Identities=15%  Similarity=0.145  Sum_probs=81.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc------------------cceeeeEEEEEEEEeCCeEEEEEEEeCCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY------------------KATIGADFVTKELQMDDKLVTLQIWDTAG   70 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   70 (210)
                      .....+|+++|+.|+|||||+++|++.......                  ....+.......+...  .+.+++|||||
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~--~~~~nliDTpG   83 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFR--GHRVFLLDAPG   83 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEET--TEEEEEEECCC
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeC--CEEEEEEeCCC
Confidence            346789999999999999999999843321000                  0112222222223333  47799999999


Q ss_pred             cccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      +.++......+++.+|++++|+|+.+....... .++..+...       ++|+++|+||+|+.
T Consensus        84 ~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~-~~~~~~~~~-------~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           84 YGDFVGEIRGALEAADAALVAVSAEAGVQVGTE-RAWTVAERL-------GLPRMVVVTKLDKG  139 (665)
T ss_dssp             SGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHHT-------TCCEEEEEECGGGC
T ss_pred             ccchHHHHHHHHhhcCcEEEEEcCCcccchhHH-HHHHHHHHc-------cCCEEEEecCCchh
Confidence            999988889999999999999998876443332 344444332       67999999999987

>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=99.77  E-value=2.7e-19  Score=143.96  Aligned_cols=152  Identities=16%  Similarity=0.147  Sum_probs=94.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc----------------------ccceeeeEEEEEEEEeCCeEEEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ----------------------YKATIGADFVTKELQMDDKLVTLQIW   66 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~i~   66 (210)
                      ....++|+++|++|+|||||+++|+.......                      ...+.++......+...  ...+.+|
T Consensus        10 ~~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~--~~~i~li   87 (529)
T 2h5e_A           10 VAKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYH--DCLVNLL   87 (529)
T ss_dssp             HHTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEET--TEEEEEE
T ss_pred             hcCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEEC--CeEEEEE
Confidence            35689999999999999999999986321100                      00011111111222333  3679999


Q ss_pred             eCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH
Q 028305           67 DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA  146 (210)
Q Consensus        67 D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~  146 (210)
                      ||||+.+|......+++.+|++|+|+|+++...... ..++..+..       .++|+++|+||+|+....    ..+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~~-------~~ipiivviNK~Dl~~~~----~~~~~  155 (529)
T 2h5e_A           88 DTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTRL-------RDTPILTFMNKLDRDIRD----PMELL  155 (529)
T ss_dssp             CCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHTT-------TTCCEEEEEECTTSCCSC----HHHHH
T ss_pred             ECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHHH-------cCCCEEEEEcCcCCcccc----HHHHH
Confidence            999999998888889999999999999987643222 222222211       278999999999997642    12333


Q ss_pred             HHHHHHcCC----CcEEEecCCCCCChHHHHH
Q 028305          147 LEWCAYRGN----IPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       147 ~~~~~~~~~----~~~~~~Sa~~~~~v~~~~~  174 (210)
                      ..+....+.    ..+...|+.++.|+.+++.
T Consensus       156 ~~i~~~l~~~~~~~~~pi~sa~~~~Gv~dl~~  187 (529)
T 2h5e_A          156 DEVENELKIGCAPITWPIGCGKLFKGVYHLYK  187 (529)
T ss_dssp             HHHHHHHCCEEEESEEEESCGGGCCEEEETTT
T ss_pred             HHHHHHhCCCccceecceecccCcceeeehhh
Confidence            344444441    1123356666666655543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.77  E-value=9.3e-18  Score=124.82  Aligned_cols=122  Identities=18%  Similarity=0.166  Sum_probs=80.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccc-------c
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSA-------F   81 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~-------~   81 (210)
                      ...++|+++|.+|+|||||+|+|++..+.. ...++.+..........++  ..+.+|||||+.++......       +
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~iiDTpG~~~~~~~~~~~~~~i~~~  114 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  114 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCC--eEEEEEECCCCCCCccchHHHHHHHHHH
Confidence            458999999999999999999999877531 2222222233333334444  67999999998766543321       1


Q ss_pred             --ccCCcEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           82 --YRGADCCVLVYDVNVQKTFES-LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        82 --~~~~d~vi~v~d~~~~~s~~~-~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                        ...+|++++|+|++... +.. ...|+..+.......  ...|+++|+||+|+.+.
T Consensus       115 ~~~~~~d~il~v~~~d~~~-~~~~~~~~~~~l~~~~~~~--~~~~iivV~nK~Dl~~~  169 (270)
T 1h65_A          115 LLDKTIDVLLYVDRLDAYR-VDNLDKLVAKAITDSFGKG--IWNKAIVALTHAQFSPP  169 (270)
T ss_dssp             TTTCEECEEEEEEESSCCC-CCHHHHHHHHHHHHHHCGG--GGGGEEEEEECCSCCCG
T ss_pred             hhcCCCCEEEEEEeCCCCc-CCHHHHHHHHHHHHHhCcc--cccCEEEEEECcccCCc
Confidence              24689999999997642 332 235666665543210  02699999999998653

>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=99.76  E-value=1.6e-18  Score=134.95  Aligned_cols=85  Identities=18%  Similarity=0.179  Sum_probs=48.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEE---------------------eCC-eEEEEEEEeCCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQ---------------------MDD-KLVTLQIWDTAG   70 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~-~~~~~~i~D~~g   70 (210)
                      ++|+++|.||+|||||+|+|++........++++.+.......                     +++ ..+.+.+|||||
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            5899999999999999999997763322333333322222211                     122 247799999999


Q ss_pred             ccc----ccccc---cccccCCcEEEEEEECCCh
Q 028305           71 QER----FQSLG---SAFYRGADCCVLVYDVNVQ   97 (210)
Q Consensus        71 ~~~----~~~~~---~~~~~~~d~vi~v~d~~~~   97 (210)
                      ...    ...+.   ..+++.+|++++|+|+++.
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            753    12222   2457899999999999875

>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=99.76  E-value=4.2e-19  Score=134.93  Aligned_cols=165  Identities=13%  Similarity=0.148  Sum_probs=97.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc------cceeeeEEEEE------------------------------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY------KATIGADFVTK------------------------------   52 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------~~~~~~~~~~~------------------------------   52 (210)
                      ....++|+|+|.+|+|||||+|+|++..+.+..      .++. ......                              
T Consensus        21 ~~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (315)
T 1jwy_B           21 PLDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLI-LQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIR   99 (315)
T ss_dssp             TTCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEE-EEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHH
T ss_pred             CCCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEE-EEEEeCCCcccccchhhhhhhhcccccccCCHHHHH
Confidence            345789999999999999999999988763211      1110 001000                              


Q ss_pred             ----------------------EEE-eCCeEEEEEEEeCCCccc-------------ccccccccccCCcEEEEEEECCC
Q 028305           53 ----------------------ELQ-MDDKLVTLQIWDTAGQER-------------FQSLGSAFYRGADCCVLVYDVNV   96 (210)
Q Consensus        53 ----------------------~~~-~~~~~~~~~i~D~~g~~~-------------~~~~~~~~~~~~d~vi~v~d~~~   96 (210)
                                            .+. .......+.+|||||...             +......+++.+|++++|+|..+
T Consensus       100 ~~i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~  179 (315)
T 1jwy_B          100 EEIIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPAN  179 (315)
T ss_dssp             HHHHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESS
T ss_pred             HHHHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecC
Confidence                                  000 011124699999999653             34455667889999999999744


Q ss_pred             hhhH-HHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC---C---CCCh
Q 028305           97 QKTF-ESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK---E---DCNI  169 (210)
Q Consensus        97 ~~s~-~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---~---~~~v  169 (210)
                      .... .....+...+.   .    .+.|+++|+||+|+.+...  ...+.+.......+ ..++++++.   +   +.|+
T Consensus       180 ~~~~~~~~~~i~~~~~---~----~~~~~i~v~NK~Dl~~~~~--~~~~~~~~~~~~~~-~~~~~v~~~sa~~~~~~~gv  249 (315)
T 1jwy_B          180 TDLANSDALQLAKEVD---P----EGKRTIGVITKLDLMDKGT--DAMEVLTGRVIPLT-LGFIGVINRSQEDIIAKKSI  249 (315)
T ss_dssp             SCSTTCSHHHHHHHHC---S----SCSSEEEEEECTTSSCSSC--CCHHHHTTSSSCCT-TCEEECCCCCHHHHSSSCCH
T ss_pred             cchhhhHHHHHHHHhC---C----CCCcEEEEEcCcccCCcch--HHHHHHhCCCccCC-CCeEEEecCChhhhccCCCH
Confidence            3211 11112222221   1    2679999999999975421  11222211000111 456666554   4   7899


Q ss_pred             HHHHHHHHHHHHhcc
Q 028305          170 DEAFLCVAEIALKNE  184 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~  184 (210)
                      .++++.+.+.+....
T Consensus       250 ~~l~~~~~~~~~~~~  264 (315)
T 1jwy_B          250 RESLKSEILYFKNHP  264 (315)
T ss_dssp             HHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHhCCC
Confidence            999999888876543

>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=1.3e-18  Score=135.86  Aligned_cols=163  Identities=17%  Similarity=0.197  Sum_probs=81.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC-Ccc-------cceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc----
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQY-------KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS----   76 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----   76 (210)
                      ....++|+|+|++|+|||||++.|++..+. ...       .++.............+....+.+||++|......    
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~  107 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC  107 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhh
Confidence            456789999999999999999999987653 111       11222222222222234445799999999764311    


Q ss_pred             ---------------------cccccccCCcEEEEEEECCCh-hhHHHHH-HHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           77 ---------------------LGSAFYRGADCCVLVYDVNVQ-KTFESLQ-NWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        77 ---------------------~~~~~~~~~d~vi~v~d~~~~-~s~~~~~-~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                                           +...++..+++.+++|..... .++.... .|+..+.    .    ++|+|+|+||+|+
T Consensus       108 ~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~----~v~iIlVinK~Dl  179 (418)
T 2qag_C          108 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----E----KVNIIPLIAKADT  179 (418)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----T----TSEEEEEEESTTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----c----cCcEEEEEEcccC
Confidence                                 112234455544444444332 2333333 4555542    1    6799999999998


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ..........+++...+...+ +.++++|+.++.++.++|..+.+.+
T Consensus       180 l~~~ev~~~k~~i~~~~~~~~-i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          180 LTPEECQQFKKQIMKEIQEHK-IKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHT-CCCCCCC-----------------C
T ss_pred             ccHHHHHHHHHHHHHHHHHcC-CeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            754212222367777777777 8999999999999999888777653

>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=99.75  E-value=6e-19  Score=136.40  Aligned_cols=157  Identities=13%  Similarity=0.146  Sum_probs=98.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEE----------------------------------------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFV----------------------------------------   50 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~----------------------------------------   50 (210)
                      ...+|+|+|++|||||||+++|++..+.+......+....                                        
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            4459999999999999999999987763222111110000                                        


Q ss_pred             --------------EEEEEeCCeEEEEEEEeCCCcccc-------------cccccccccCCcEEEEEEECCChhhHHHH
Q 028305           51 --------------TKELQMDDKLVTLQIWDTAGQERF-------------QSLGSAFYRGADCCVLVYDVNVQKTFESL  103 (210)
Q Consensus        51 --------------~~~~~~~~~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d~vi~v~d~~~~~s~~~~  103 (210)
                                    ...+. ......+.+|||||...+             ......+++.+|++|++++..+.+...  
T Consensus       113 ~~~g~~~~~s~~~i~l~i~-~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--  189 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIY-SPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--  189 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEE-ETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--
T ss_pred             HhcCCCCCcccceEEEEEe-CCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--
Confidence                          00000 011235899999997765             455667889999999999876543222  


Q ss_pred             HHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHH
Q 028305          104 QNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus       104 ~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  177 (210)
                      ..|+..+.....    .+.|+++|+||+|+....  ....+.........+ ..|+++++..+.++++.+..+.
T Consensus       190 ~~~~~l~~~~~~----~~~~~i~V~nK~Dl~~~~--~~~~~~~~~~~~~~~-~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          190 SDAIKISREVDP----SGDRTFGVLTKIDLMDKG--TDAVEILEGRSFKLK-YPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             CHHHHHHHHSCT----TCTTEEEEEECGGGCCTT--CCSHHHHTTSSSCCS-SCCEEECCCCHHHHHTTCCHHH
T ss_pred             HHHHHHHHHhcc----cCCCEEEEEeCCccCCCc--ccHHHHHcCcccccc-CCeEEEEECChHHhccCCCHHH
Confidence            223333332222    267999999999997542  222232332233334 7899999999988887665543

>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=1.2e-18  Score=131.32  Aligned_cols=135  Identities=19%  Similarity=0.127  Sum_probs=106.7

Q ss_pred             HHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChh-hHHHHH
Q 028305           27 SLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQK-TFESLQ  104 (210)
Q Consensus        27 sli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~  104 (210)
                      +|+++++.+.|. ..+.++++..+. .....++   .+.+||+  ++++..++..+++++|++|+|||++++. ++..+.
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            588888888888 778888885543 3322222   6899999  8899999999999999999999999997 788888


Q ss_pred             HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC-CcEEEecCCCCCChHHHHHHHHH
Q 028305          105 NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN-IPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       105 ~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      .|+..+...       ++|+++|+||+|+.+.  +.+  ++...++..+.. ..++++||++|.|++++|..+..
T Consensus       106 ~~l~~~~~~-------~~piilv~NK~DL~~~--~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEKN-------ELETVMVINKMDLYDE--DDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHHT-------TCEEEEEECCGGGCCH--HHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHHC-------CCCEEEEEeHHHcCCc--hhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            998876541       7899999999999753  222  445566655543 68999999999999999988754

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.74  E-value=2.4e-17  Score=133.25  Aligned_cols=119  Identities=16%  Similarity=0.178  Sum_probs=84.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcC------------------C----CcccceeeeEEEEEEEEeCCeEEEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKF------------------S----QQYKATIGADFVTKELQMDDKLVTLQIW   66 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~------------------~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~   66 (210)
                      ..+..+|+|+|+.++|||||..+|+...-                  .    .+...++++.-....+...+  ..++++
T Consensus        28 ~~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~--~~iNlI  105 (548)
T 3vqt_A           28 AARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD--RVVNLL  105 (548)
T ss_dssp             HHTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT--EEEEEE
T ss_pred             ccccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC--EEEEEE
Confidence            34689999999999999999999862111                  0    11111222222223334444  679999


Q ss_pred             eCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           67 DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        67 D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      ||||+.+|.......++-+|++|+|+|....-......-|... .++       ++|.++++||+|.....
T Consensus       106 DTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a-~~~-------~lp~i~fINK~Dr~~ad  168 (548)
T 3vqt_A          106 DTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVC-RMR-------ATPVMTFVNKMDREALH  168 (548)
T ss_dssp             CCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHH-HHT-------TCCEEEEEECTTSCCCC
T ss_pred             eCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHH-HHh-------CCceEEEEecccchhcc
Confidence            9999999999999999999999999999987655555555333 332       88999999999987654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.74  E-value=4.9e-18  Score=122.67  Aligned_cols=159  Identities=14%  Similarity=0.109  Sum_probs=94.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEE--------------EEEEEEe----------------CCe
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADF--------------VTKELQM----------------DDK   59 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--------------~~~~~~~----------------~~~   59 (210)
                      ....+|+++|.+|+|||||+++|...............++              .......                ...
T Consensus        28 ~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (221)
T 2wsm_A           28 SGTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFS  107 (221)
T ss_dssp             HTCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGT
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcC
Confidence            4568999999999999999999986532211111111000              0011111                011


Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR  139 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~  139 (210)
                      ...+.+|||+|+.....   .+....+.+++|+|+.+....  ...+....          +.|+++|+||+|+.+.  .
T Consensus       108 ~~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~~~~~~~~----------~~~~iiv~NK~Dl~~~--~  170 (221)
T 2wsm_A          108 DCDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--VEKHPEIF----------RVADLIVINKVALAEA--V  170 (221)
T ss_dssp             TCSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--HHHCHHHH----------HTCSEEEEECGGGHHH--H
T ss_pred             CCCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--hhhhhhhh----------hcCCEEEEecccCCcc--h
Confidence            24688999988511111   111246889999998765321  11111111          4589999999998532  1


Q ss_pred             ccchHHHHHHHHHcC-CCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          140 VVPQKKALEWCAYRG-NIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       140 ~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ....++....++..+ ..+++++||++|.|+++++++|.+.+.....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~~~  217 (221)
T 2wsm_A          171 GADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVHSD  217 (221)
T ss_dssp             TCCHHHHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC----
T ss_pred             hhHHHHHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHHHh
Confidence            123445555554433 4689999999999999999999998866543

>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=99.73  E-value=1.1e-17  Score=128.58  Aligned_cols=158  Identities=14%  Similarity=0.118  Sum_probs=106.2

Q ss_pred             CCcHHHH--HHHHhhCcCCCc-------ccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           22 GVGKTSL--MNQYVYNKFSQQ-------YKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        22 ~~GKSsl--i~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      .+.+--|  +.++....+.+.       ..+|+++..  ..+.+++  +.+.+|||+|++.++..+..++++++++|+|+
T Consensus       157 ds~~yfl~~~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~--~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~  232 (362)
T 1zcb_A          157 ESVKYFLDNLDKLGVPDYIPSQQDILLARRPTKGIHE--YDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLV  232 (362)
T ss_dssp             TTHHHHHTTHHHHTSTTCCCCHHHHHHCCCCCSSEEE--EEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEE
T ss_pred             ccHHHHHHHHHHHhcCCCCCChhhhhhccCCccceEE--EEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEE
Confidence            4444433  445554444432       234445443  3444544  78999999999999999999999999999999


Q ss_pred             ECCC----------hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--------------CcccchHHHHH
Q 028305           93 DVNV----------QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--------------SRVVPQKKALE  148 (210)
Q Consensus        93 d~~~----------~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--------------~~~~~~~~~~~  148 (210)
                      |+++          ..++.....|+..+.....   ..++|+|+|+||+|+.+..              ......+++..
T Consensus       233 dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~---~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~  309 (362)
T 1zcb_A          233 SSSEFDQVLMEDRQTNRLTESLNIFETIVNNRV---FSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK  309 (362)
T ss_dssp             ETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGG---GTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHH
T ss_pred             ECccccccccccccccHHHHHHHHHHHHhcchh---hCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHH
Confidence            9999          7789888888888765321   1278999999999985210              01144566666


Q ss_pred             HHH-------H---cCCCcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          149 WCA-------Y---RGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       149 ~~~-------~---~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      ++.       .   ...+.+++|||+++.||+++|+++.+.+++.+.+
T Consensus       310 ~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~l~  357 (362)
T 1zcb_A          310 FLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDNLK  357 (362)
T ss_dssp             HHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHHHHH
Confidence            551       1   1237789999999999999999999999877654

>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=99.72  E-value=2.2e-17  Score=127.93  Aligned_cols=128  Identities=16%  Similarity=0.140  Sum_probs=99.7

Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHHhcCCCCCCC
Q 028305           52 KELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNV----------QKTFESLQNWREEFLKQADPGEHEA  121 (210)
Q Consensus        52 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~~~~~~~~  121 (210)
                      ..+.+++  +.+.+|||+|++.++..+..++++++++|+|||+++          ..++.....|+..+.....   ..+
T Consensus       210 ~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~---~~~  284 (402)
T 1azs_C          210 TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRW---LRT  284 (402)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTT---CSS
T ss_pred             EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhccc---CCC
Confidence            3445554  889999999999999999999999999999999999          8899999999888875421   237


Q ss_pred             CCEEEEEecCCCCCCCCcc---c---------------------------chHHHHHHH-----HHc-------CCCcEE
Q 028305          122 CPFVLLGNKIDTDGGSSRV---V---------------------------PQKKALEWC-----AYR-------GNIPYF  159 (210)
Q Consensus       122 ~p~ilv~~K~D~~~~~~~~---~---------------------------~~~~~~~~~-----~~~-------~~~~~~  159 (210)
                      +|++||+||+|+...  +.   .                           ..+++..++     +..       ..+.++
T Consensus       285 ~piiLvgNK~DL~~~--ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~  362 (402)
T 1azs_C          285 ISVILFLNKQDLLAE--KVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPH  362 (402)
T ss_dssp             CCEEEEEECHHHHHH--HHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEE
T ss_pred             CeEEEEEEChhhhhh--hhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEE
Confidence            899999999998432  11   0                           134454443     221       235678


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                      +|||+++.||+++|..+.+.+++.+.+
T Consensus       363 ~TSA~d~~nV~~vF~~v~~~I~~~~l~  389 (402)
T 1azs_C          363 FTCAVDTENIRRVFNDCRDIIQRMHLR  389 (402)
T ss_dssp             ECCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEeecCcCHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998877654

>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=99.71  E-value=3.5e-19  Score=137.28  Aligned_cols=159  Identities=16%  Similarity=0.183  Sum_probs=91.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc------cceeeeE-----------------------------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY------KATIGAD-----------------------------------   48 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------~~~~~~~-----------------------------------   48 (210)
                      ...++|+|+|.+|+|||||+++|++..+.+..      .|+...-                                   
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            35679999999999999999999988764211      1221000                                   


Q ss_pred             ----------EEEEEEEeCCeEEEEEEEeCCCcc-------------cccccccccccCCcEEEE-EEECCChhhHHHHH
Q 028305           49 ----------FVTKELQMDDKLVTLQIWDTAGQE-------------RFQSLGSAFYRGADCCVL-VYDVNVQKTFESLQ  104 (210)
Q Consensus        49 ----------~~~~~~~~~~~~~~~~i~D~~g~~-------------~~~~~~~~~~~~~d~vi~-v~d~~~~~s~~~~~  104 (210)
                                .....+.. .....+.+|||||..             .+..+...++..++.+|+ +.+.+....-....
T Consensus       109 ~g~~~gi~~~~~~~~i~~-~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~  187 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYS-PHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  187 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEE-TTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHH
T ss_pred             cccCCCcccCceEEEEec-CCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHH
Confidence                      00000000 012569999999953             234455666766655554 55554322111111


Q ss_pred             HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHH--HHHHcCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          105 NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALE--WCAYRGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       105 ~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      .+...+   ..    .+.|+++|+||+|+.+....  ..+....  +....+...++++||+++.|++++++++.+
T Consensus       188 ~i~~~~---~~----~~~~~i~V~NK~Dl~~~~~~--~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          188 KVAKEV---DP----QGQRTIGVITKLDLMDEGTD--ARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHH---CT----TCTTEEEEEECGGGSCTTCC--CHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHh---Cc----CCCceEEEeccccccCcchh--HHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            222222   11    26799999999999754211  1111110  000012235788999999999999999977

>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=99.71  E-value=4.4e-18  Score=131.16  Aligned_cols=107  Identities=14%  Similarity=0.076  Sum_probs=70.6

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV  140 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~  140 (210)
                      +.+.+|||||...   .....+..+|++++|+|....+....+..            .....|+++|+||+|+.+.....
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~------------~~~~~p~ivVlNK~Dl~~~~~~~  236 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKK------------GVLELADIVVVNKADGEHHKEAR  236 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCT------------TSGGGCSEEEEECCCGGGHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHH------------hHhhcCCEEEEECCCCcChhHHH
Confidence            5689999999432   23344588999999999876543322211            01145999999999986421111


Q ss_pred             cchHHHHHHHHHcC------CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          141 VPQKKALEWCAYRG------NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       141 ~~~~~~~~~~~~~~------~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ....+........+      ..+++++||++|.|+++++++|.+.+..
T Consensus       237 ~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          237 LAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            12222322222221      3689999999999999999999988765

>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=99.70  E-value=5.9e-17  Score=136.94  Aligned_cols=118  Identities=19%  Similarity=0.198  Sum_probs=85.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC------------C----cccc--eeeeEEEEEEEE------------eCC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------Q----QYKA--TIGADFVTKELQ------------MDD   58 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------~----~~~~--~~~~~~~~~~~~------------~~~   58 (210)
                      .....+|+|+|++|+|||||+++|+...-.            +    +...  ++........+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            456789999999999999999999854211            0    0011  111111122222            234


Q ss_pred             eEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           59 KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ..+.+++|||||+.+|...+..+++.+|++|+|+|+++..++.....|..... .       ++|+++|+||+|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~-~-------~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG-E-------RIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH-T-------TCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-c-------CCCeEEEEECCCcc
Confidence            46889999999999999999999999999999999999888777655544332 1       67999999999985

>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=99.69  E-value=7.8e-16  Score=117.79  Aligned_cols=149  Identities=18%  Similarity=0.115  Sum_probs=91.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCccccc--
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQERFQ--   75 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~--   75 (210)
                      ++|+++|.||+|||||+|+|.+........++.+.+.....+.+.+.               ...+.+|||||..+..  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            68999999999999999999987643333333333332233344332               1469999999976542  


Q ss_pred             --ccc---cccccCCcEEEEEEECCCh----------hhHHHHHHHHHHHH-----------------------------
Q 028305           76 --SLG---SAFYRGADCCVLVYDVNVQ----------KTFESLQNWREEFL-----------------------------  111 (210)
Q Consensus        76 --~~~---~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~-----------------------------  111 (210)
                        .+.   ...++.+|++++|+|+++.          +.+..+..+..++.                             
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~  162 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFEL  162 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHH
Confidence              222   2347899999999999862          22333222111110                             


Q ss_pred             -------HhcC--------------------CCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305          112 -------KQAD--------------------PGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus       112 -------~~~~--------------------~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                             ..+.                    .......|+++++|+.|..-.  .....+.++.++...+ .+++++||+
T Consensus       163 ~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~--~n~~~~~v~~~~~~~~-~~~i~~sA~  239 (363)
T 1jal_A          163 SVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFE--NNPYLDRVREIAAKEG-AVVVPVCAA  239 (363)
T ss_dssp             HHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSS--SCHHHHHHHHHHHHTT-CEEEEECHH
T ss_pred             HHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEeccccccc--ccHHHHHHHHHHHHcC-CCEEEechH
Confidence                   0000                    011225899999999996431  2345667777777766 789999965

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.69  E-value=1.2e-16  Score=115.71  Aligned_cols=157  Identities=17%  Similarity=0.134  Sum_probs=93.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEE------------EEEEEeC-CeE----------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFV------------TKELQMD-DKL----------------   60 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~-~~~----------------   60 (210)
                      ...++|+|+|.+|||||||+++|+...+...+.++...++.            .....++ +..                
T Consensus        36 ~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~  115 (226)
T 2hf9_A           36 HGVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLN  115 (226)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSC
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHh
Confidence            45799999999999999999999977655444444443322            1111111 110                


Q ss_pred             ---EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           61 ---VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        61 ---~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                         ..+.++|++|.-...   ..+-...+..+.+.|.........  .....+          +.|+++|+||+|+.+. 
T Consensus       116 ~~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~~----------~~~~iiv~NK~Dl~~~-  179 (226)
T 2hf9_A          116 LDEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KHPGIM----------KTADLIVINKIDLADA-  179 (226)
T ss_dssp             GGGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TCHHHH----------TTCSEEEEECGGGHHH-
T ss_pred             cCCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh--hhhhHh----------hcCCEEEEeccccCch-
Confidence               135555655521110   011123456667777532211100  001111          4588999999998542 


Q ss_pred             CcccchHHHHHHHHHcC-CCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          138 SRVVPQKKALEWCAYRG-NIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       138 ~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                       .....++....++..+ ..+++++||++|.|++++|+++.+.+..+
T Consensus       180 -~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~  225 (226)
T 2hf9_A          180 -VGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKEV  225 (226)
T ss_dssp             -HTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             -hHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHhh
Confidence             2234555666665543 47899999999999999999999887654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.66  E-value=1e-17  Score=128.71  Aligned_cols=106  Identities=13%  Similarity=0.009  Sum_probs=62.0

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV  140 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~  140 (210)
                      ..+.++||+|....   .......+|++++|+|.+++.....+..   .+   .      ..|.++|+||+|+.+.....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i---l------~~~~ivVlNK~Dl~~~~~~~  231 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI---I------EMADLVAVTKSDGDLIVPAR  231 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC------------------C------CSCSEEEECCCSGGGHHHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH---H------hcCCEEEEeeecCCCchhHH
Confidence            46889999995321   2334678999999999986532221111   11   1      45889999999985310000


Q ss_pred             cchHHHHHHHHH------cCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          141 VPQKKALEWCAY------RGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       141 ~~~~~~~~~~~~------~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ............      ....+++.+||++|.|+++++++|.+.+.
T Consensus       232 ~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          232 RIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            011111111111      11257899999999999999999988764

>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=99.64  E-value=1.9e-16  Score=121.38  Aligned_cols=107  Identities=15%  Similarity=0.164  Sum_probs=66.6

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV  140 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~  140 (210)
                      +.+.+|||||......   .....+|++++|+|.+.......+..   ...         +.|.++|+||+|+.+.....
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~~---------~~p~ivv~NK~Dl~~~~~~~  213 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GLM---------EVADLIVINKDDGDNHTNVA  213 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HHH---------HHCSEEEECCCCTTCHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hhh---------cccCEEEEECCCCCChHHHH
Confidence            5699999999654332   24578999999999876533211111   000         45889999999986421111


Q ss_pred             cchHHHHHHHHHcC------CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          141 VPQKKALEWCAYRG------NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       141 ~~~~~~~~~~~~~~------~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ...++........+      ..+++++||++|.|+++++++|.+.+..
T Consensus       214 ~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~~  261 (341)
T 2p67_A          214 IARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTA  261 (341)
T ss_dssp             HHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            11112332222222      3578999999999999999999998753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.62  E-value=2.6e-16  Score=127.30  Aligned_cols=120  Identities=17%  Similarity=0.144  Sum_probs=78.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC---CcccceeeeEEEEEEE-----EeC-----------------C-----
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGADFVTKEL-----QMD-----------------D-----   58 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~-----~~~-----------------~-----   58 (210)
                      ....++|+|+|.+|+|||||+|+|++..+.   ....+++.........     ..+                 +     
T Consensus        62 ~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~  141 (550)
T 2qpt_A           62 FDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLN  141 (550)
T ss_dssp             TSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCT
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhcccccc
Confidence            346789999999999999999999988763   2222222111100000     000                 0     


Q ss_pred             e-E---------EEEEEEeCCCccc-----------ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCC
Q 028305           59 K-L---------VTLQIWDTAGQER-----------FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPG  117 (210)
Q Consensus        59 ~-~---------~~~~i~D~~g~~~-----------~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~  117 (210)
                      . .         ..+.+|||||...           +......++..+|++++|+|+++.........++..+..     
T Consensus       142 ~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~-----  216 (550)
T 2qpt_A          142 RFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG-----  216 (550)
T ss_dssp             TEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT-----
T ss_pred             cceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh-----
Confidence            0 0         2589999999764           334455667889999999999875444444555554432     


Q ss_pred             CCCCCCEEEEEecCCCCC
Q 028305          118 EHEACPFVLLGNKIDTDG  135 (210)
Q Consensus       118 ~~~~~p~ilv~~K~D~~~  135 (210)
                        .+.|+++|+||+|+..
T Consensus       217 --~~~pvilVlNK~Dl~~  232 (550)
T 2qpt_A          217 --HEDKIRVVLNKADMVE  232 (550)
T ss_dssp             --CGGGEEEEEECGGGSC
T ss_pred             --cCCCEEEEEECCCccC
Confidence              1579999999999875

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.62  E-value=1.1e-14  Score=121.27  Aligned_cols=123  Identities=17%  Similarity=0.167  Sum_probs=83.7

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCc--------------CC----CcccceeeeEEEEEEEEeC-----CeEEE
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNK--------------FS----QQYKATIGADFVTKELQMD-----DKLVT   62 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~--------------~~----~~~~~~~~~~~~~~~~~~~-----~~~~~   62 (210)
                      ..+-+...+|+|+|+.++|||||..+|+...              +.    .+...++++.-....+...     ...+.
T Consensus         7 ~~p~~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~   86 (709)
T 4fn5_A            7 TTPINRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYR   86 (709)
T ss_dssp             CSCGGGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEE
T ss_pred             CCchHHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEE
Confidence            3344678899999999999999999986211              00    0111111211112222222     23578


Q ss_pred             EEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           63 LQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        63 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ++++|||||.+|.......++-+|++|+|+|+...-......-|......        ++|.++++||+|....
T Consensus        87 iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~--------~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           87 VNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY--------GVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             EEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH--------TCCEEEEEECSSSTTC
T ss_pred             EEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc--------CCCeEEEEccccccCc
Confidence            99999999999999999999999999999999876555554444444433        7899999999998644

>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=99.62  E-value=7.6e-16  Score=118.49  Aligned_cols=159  Identities=17%  Similarity=0.109  Sum_probs=92.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCC-------------------eEEEEEEEeCCCccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD-------------------KLVTLQIWDTAGQER   73 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~g~~~   73 (210)
                      ++|+++|.||+|||||+++|.+........+..+.........+.+                   ....+.+|||||...
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            5799999999999999999997643211112111111112222221                   235699999999765


Q ss_pred             ccc----c---ccccccCCcEEEEEEECCCh----------hhHHHHHHHHHHH--------------------------
Q 028305           74 FQS----L---GSAFYRGADCCVLVYDVNVQ----------KTFESLQNWREEF--------------------------  110 (210)
Q Consensus        74 ~~~----~---~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l--------------------------  110 (210)
                      ...    +   ....++.+|++++|+|+++.          +.+..+..+..++                          
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            421    2   22347899999999999852          1122111110100                          


Q ss_pred             ---------HHhcCC--------------------CCCCCCCEEEEEecCCCCCCC-CcccchHHHHHHHHHcCCCcEEE
Q 028305          111 ---------LKQADP--------------------GEHEACPFVLLGNKIDTDGGS-SRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus       111 ---------~~~~~~--------------------~~~~~~p~ilv~~K~D~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                               ...+..                    ......|+++++||.|..-.. ......+.++.++...+ .++++
T Consensus       162 ~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g-~~vv~  240 (368)
T 2dby_A          162 PLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEG-AEVVV  240 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHT-CEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcC-CeEEE
Confidence                     000000                    011247999999999842111 12345677778887777 78999


Q ss_pred             ecCCCCCChHHH
Q 028305          161 TSAKEDCNIDEA  172 (210)
Q Consensus       161 ~Sa~~~~~v~~~  172 (210)
                      +||+...++.++
T Consensus       241 iSAk~E~el~eL  252 (368)
T 2dby_A          241 VSARLEAELAEL  252 (368)
T ss_dssp             ECHHHHHHHHTS
T ss_pred             eechhHHHHHHh
Confidence            999875555433

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.59  E-value=1.8e-14  Score=110.87  Aligned_cols=140  Identities=16%  Similarity=0.070  Sum_probs=93.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-------cccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-------SLGSAF   81 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~   81 (210)
                      +....+|+++|.||+|||||+|+|++........|+++.+.....+.+.+  .+++++||||...-.       ......
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~  146 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAV  146 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHH
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHH
Confidence            44567999999999999999999998776556667778888888888887  568889999953211       112344


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC------CCcccchHHHHHHHHHcC
Q 028305           82 YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG------SSRVVPQKKALEWCAYRG  154 (210)
Q Consensus        82 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~------~~~~~~~~~~~~~~~~~~  154 (210)
                      ++.+|++++|+|.++|..  .......++.....  .....|.++++||.|...-      .......++.+.+...+.
T Consensus       147 i~~ad~il~vvD~~~p~~--~~~~i~~EL~~~~~--~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~  221 (376)
T 4a9a_A          147 ARTCNLLFIILDVNKPLH--HKQIIEKELEGVGI--RLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYR  221 (376)
T ss_dssp             HHHCSEEEEEEETTSHHH--HHHHHHHHHHHTTE--EETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTT
T ss_pred             HHhcCccccccccCccHH--HHHHHHHHHHHhhH--hhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhc
Confidence            678999999999998743  22223333333211  1125688899999997421      112334555555555544

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.59  E-value=2.4e-16  Score=129.77  Aligned_cols=116  Identities=21%  Similarity=0.253  Sum_probs=80.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc--CCC----------------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK--FSQ----------------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ..||+|+|+.++|||||..+|+...  ...                +...++++.  .....+.-....++++|||||.+
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~--s~~~~~~~~~~~iNlIDTPGH~D   79 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQ--TGITSFQWENTKVNIIDTPGHMD   79 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSS--CCCCCCBCSSCBCCCEECCCSSS
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEE--eeeEEEEECCEEEEEEECCCcHH
Confidence            4589999999999999999987211  110                001111222  22222222346789999999999


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      |.......++-+|++|+|+|+...-......-|. ...++       ++|.++++||+|....+
T Consensus        80 F~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~-~a~~~-------~lp~i~~INKmDr~~a~  135 (638)
T 3j25_A           80 FLAEVYRSLSVLDGAILLISAKDGVQAQTRILFH-ALRKM-------GIPTIFFINKIDQNGID  135 (638)
T ss_dssp             THHHHHHHHTTCSEEECCEESSCTTCSHHHHHHH-HHHHH-------TCSCEECCEECCSSSCC
T ss_pred             HHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHH-HHHHc-------CCCeEEEEeccccccCC
Confidence            9999999999999999999998764444433443 33333       78999999999986543

>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=99.59  E-value=7e-16  Score=127.70  Aligned_cols=159  Identities=16%  Similarity=0.152  Sum_probs=95.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-cceee------------------------------------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-KATIG------------------------------------------   46 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~------------------------------------------   46 (210)
                      ....+|+|+|.+++|||||+|+|++..+.+.. ...+.                                          
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            45679999999999999999999987762111 11100                                          


Q ss_pred             --------eEEEEEEEEeCCeEEEEEEEeCCCccc-------------ccccccccc-cCCcEEEEEEECCChhhHHHHH
Q 028305           47 --------ADFVTKELQMDDKLVTLQIWDTAGQER-------------FQSLGSAFY-RGADCCVLVYDVNVQKTFESLQ  104 (210)
Q Consensus        47 --------~~~~~~~~~~~~~~~~~~i~D~~g~~~-------------~~~~~~~~~-~~~d~vi~v~d~~~~~s~~~~~  104 (210)
                              .+.....+...+ ...+.++||||...             +......++ ..+|++++|+|.++........
T Consensus       129 ~g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH
T ss_pred             cCCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH
Confidence                    000011111111 12478999999433             222333444 5689999999998753322222


Q ss_pred             HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHH--H-HHHcCCCcEEEecCCCCCChHHHHHHHHHH
Q 028305          105 NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALE--W-CAYRGNIPYFETSAKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       105 ~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  179 (210)
                      .+...+..       .+.|+++|+||+|+.......   .....  . ....+..+++.+||++|.|++++++.+.+.
T Consensus       208 ~ll~~L~~-------~g~pvIlVlNKiDlv~~~~~~---~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          208 KIAKEVDP-------QGQRTIGVITKLDLMDEGTDA---RDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HHHHHHCT-------TCSSEEEEEECTTSSCTTCCS---HHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             HHHHHHHh-------cCCCEEEEEeCcccCCcchhh---HHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            23333321       167999999999997542211   11111  0 000122457889999999999999999874

>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=99.56  E-value=2e-14  Score=106.30  Aligned_cols=115  Identities=13%  Similarity=-0.047  Sum_probs=68.0

Q ss_pred             EEEEEEeCCCccccccccc------ccccCCcEEEEEEECCChhhHHHHH---HHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           61 VTLQIWDTAGQERFQSLGS------AFYRGADCCVLVYDVNVQKTFESLQ---NWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~---~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      +.+.+|||||..+......      ..+.. +++++++|...........   .+........      ++|+++|+||+
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~------~~p~~iv~NK~  181 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRL------GATTIPALNKV  181 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHH------TSCEEEEECCG
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhccc------CCCeEEEEecc
Confidence            4699999999876533221      23455 8888888875432222211   1111111111      57999999999


Q ss_pred             CCCCCCCcccchH---HHH----H-----------------HHHHcC-CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          132 DTDGGSSRVVPQK---KAL----E-----------------WCAYRG-NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       132 D~~~~~~~~~~~~---~~~----~-----------------~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      |+..........+   +..    .                 ++...+ ..+++++||++|.|+++++++|.+.+..
T Consensus       182 D~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          182 DLLSEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             GGCCHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cccccccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            9865310000001   000    0                 123333 2489999999999999999999887754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.47  E-value=2e-13  Score=104.34  Aligned_cols=104  Identities=13%  Similarity=0.125  Sum_probs=62.9

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV  140 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~  140 (210)
                      ..+.++||+|.....   ......+|.+++++|....+....+...   +.         ..|.++++||+|+...  ..
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~---------~~~~ivvlNK~Dl~~~--~~  210 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKG---IF---------ELADMIAVNKADDGDG--ER  210 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTT---HH---------HHCSEEEEECCSTTCC--HH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHH---Hh---------ccccEEEEEchhccCc--hh
Confidence            568999999964321   2335689999999998654321111111   11         2366888899997532  11


Q ss_pred             cchHHHHHHHHH---cC------CCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          141 VPQKKALEWCAY---RG------NIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       141 ~~~~~~~~~~~~---~~------~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ........+...   ..      ..+++.+||+++.|++++++.|.+...
T Consensus       211 ~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          211 RASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            111112222211   11      257899999999999999999988764

>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=99.46  E-value=3.6e-13  Score=101.46  Aligned_cols=97  Identities=20%  Similarity=0.096  Sum_probs=77.6

Q ss_pred             cccccccccccccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc-hHHHHH
Q 028305           71 QERFQSLGSAFYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP-QKKALE  148 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~-~~~~~~  148 (210)
                      ++++..+...+++++|++++|+|++++. ++..+..|+..+...       ++|+++|+||+|+.+.  .... .++...
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~-------~~~~ilV~NK~DL~~~--~~v~~~~~~~~  136 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYF-------KVEPVIVFNKIDLLNE--EEKKELERWIS  136 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHT-------TCEEEEEECCGGGCCH--HHHHHHHHHHH
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhC-------CCCEEEEEEcccCCCc--cccHHHHHHHH
Confidence            6677777788999999999999999986 888888998876542       7899999999999753  2112 345556


Q ss_pred             HHHHcCCCcEEEecCCCCCChHHHHHHHH
Q 028305          149 WCAYRGNIPYFETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus       149 ~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  177 (210)
                      +++..+ .+++++||++|.|++++++.+.
T Consensus       137 ~~~~~g-~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          137 IYRDAG-YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             HHHHTT-CEEEECCTTTCTTHHHHHHHTT
T ss_pred             HHHHCC-CeEEEEECCCCCCHHHHHhhcc
Confidence            666666 7999999999999999998764

>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=2.7e-13  Score=104.76  Aligned_cols=88  Identities=17%  Similarity=0.114  Sum_probs=52.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCcccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQERF   74 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~   74 (210)
                      ...++|+++|.+|+|||||+|+|.+........++.+.+.....+.+.+.               ...+.+|||||....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            45689999999999999999999987664444455555554455544432               235999999997654


Q ss_pred             cc-------cccccccCCcEEEEEEECCCh
Q 028305           75 QS-------LGSAFYRGADCCVLVYDVNVQ   97 (210)
Q Consensus        75 ~~-------~~~~~~~~~d~vi~v~d~~~~   97 (210)
                      ..       ....+++.+|++++|+|+.+.
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC---
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence            33       345667899999999999754

>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=99.37  E-value=3e-13  Score=94.66  Aligned_cols=110  Identities=12%  Similarity=0.008  Sum_probs=71.4

Q ss_pred             CCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-CCCCCEEEEEecC-CCCCCCCcccchHHH
Q 028305           69 AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGE-HEACPFVLLGNKI-DTDGGSSRVVPQKKA  146 (210)
Q Consensus        69 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~-~~~~p~ilv~~K~-D~~~~~~~~~~~~~~  146 (210)
                      +|+..++.+|..|+.++|++|||+|.+|.+..+ ...-+..+........ ..++|++|++||. |+....    ...++
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Am----s~~EI  184 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRM----PCFYL  184 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBC----CHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCC----CHHHH
Confidence            378899999999999999999999999876543 2222333344443332 3588999999995 675432    23333


Q ss_pred             HHHHH---HcCCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          147 LEWCA---YRGNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       147 ~~~~~---~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      .+...   -.+...+..|||.+|+|+.+.++||.+.+...
T Consensus       185 ~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k  224 (227)
T 3l82_B          185 AHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  224 (227)
T ss_dssp             HHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC
T ss_pred             HHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhh
Confidence            22221   12346799999999999999999998776443

>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=99.29  E-value=2.8e-11  Score=93.78  Aligned_cols=87  Identities=18%  Similarity=0.184  Sum_probs=61.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQER   73 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~   73 (210)
                      ....+|+++|++|+|||||+|.|.+... .....|+.+.+.....+.+.+.               ...+.+||+||...
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~   97 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   97 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccccc
Confidence            3467999999999999999999998765 4444555555555555555541               13589999999443


Q ss_pred             -------ccccccccccCCcEEEEEEECCC
Q 028305           74 -------FQSLGSAFYRGADCCVLVYDVNV   96 (210)
Q Consensus        74 -------~~~~~~~~~~~~d~vi~v~d~~~   96 (210)
                             +.......++.+|++++|+|+.+
T Consensus        98 ~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           98 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                   22233445688999999999863

>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=99.19  E-value=2.9e-12  Score=94.06  Aligned_cols=110  Identities=12%  Similarity=0.005  Sum_probs=72.7

Q ss_pred             CCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCC-CCCCCEEEEEec-CCCCCCCCcccchHH
Q 028305           68 TAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGE-HEACPFVLLGNK-IDTDGGSSRVVPQKK  145 (210)
Q Consensus        68 ~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~-~~~~p~ilv~~K-~D~~~~~~~~~~~~~  145 (210)
                      .+|+...+.+|..|+.++|++|||+|.+|.+.++ ...-+.++........ ..+.|++|++|| .|+.+..    ...+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Am----s~~E  268 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRM----PCFY  268 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBC----CHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCC----CHHH
Confidence            3578899999999999999999999999986543 2221122212111110 127899999997 5786542    2233


Q ss_pred             HHHHHH---HcCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          146 ALEWCA---YRGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       146 ~~~~~~---~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +.+...   -.+...+..+||.+|+|+.+.++||.+.+..
T Consensus       269 I~e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          269 LAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  308 (312)
T ss_dssp             HHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC
T ss_pred             HHHHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHh
Confidence            322211   1134679999999999999999999987643

>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=99.15  E-value=6.8e-11  Score=92.24  Aligned_cols=148  Identities=16%  Similarity=0.165  Sum_probs=74.1

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc----cceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc------
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY----KATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ------   75 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------   75 (210)
                      .......++++|+|++|+|||||++.|.+..+....    .+..............+....+.++|++|.....      
T Consensus        36 ~i~~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~  115 (427)
T 2qag_B           36 SVSQGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSY  115 (427)
T ss_dssp             SCC-CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHS
T ss_pred             EecCCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhh
Confidence            344555688999999999999999999876543211    1222222111222222323468899998853211      


Q ss_pred             ------------cccccc---------ccC--CcE-EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           76 ------------SLGSAF---------YRG--ADC-CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        76 ------------~~~~~~---------~~~--~d~-vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                                  .....+         ...  +|+ ++++.|...+-+-..     ..+.+.+..    ++|+|+|.+|+
T Consensus       116 ~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D-----ieilk~L~~----~~~vI~Vi~Kt  186 (427)
T 2qag_B          116 KPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD-----LVTMKKLDS----KVNIIPIIAKA  186 (427)
T ss_dssp             HHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH-----HHHHHHTCS----CSEEEEEESCG
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH-----HHHHHHHhh----CCCEEEEEcch
Confidence                        001111         112  233 555555544322222     122222222    78999999999


Q ss_pred             CCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305          132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus       132 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      |.............+.......+ ++++.+|.
T Consensus       187 D~Lt~~E~~~l~~~I~~~L~~~g-i~I~~is~  217 (427)
T 2qag_B          187 DAISKSELTKFKIKITSELVSNG-VQIYQFPT  217 (427)
T ss_dssp             GGSCHHHHHHHHHHHHHHHBTTB-CCCCCCC-
T ss_pred             hccchHHHHHHHHHHHHHHHHcC-CcEEecCC
Confidence            98754222233333333233344 66777764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.13  E-value=1.1e-10  Score=86.50  Aligned_cols=139  Identities=16%  Similarity=0.205  Sum_probs=73.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCc--------ccc-eeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc------
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQ--------YKA-TIGADFVTKELQMDDKLVTLQIWDTAGQERFQS------   76 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~--------~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------   76 (210)
                      .|+++|+|+.|+|||||++.|.+...+..        ..+ +..........+..+....+.++|++|......      
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            58999999999999999999986443211        000 000011011111112223688999998322100      


Q ss_pred             cc----------------------cccccCCcEEEEEEECC-ChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           77 LG----------------------SAFYRGADCCVLVYDVN-VQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        77 ~~----------------------~~~~~~~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ..                      ...+..+++.++++|.. .+-.-.. ...+..+..        .+++++|++|+|.
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~--------~~~vI~Vi~K~D~  152 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSK--------VVNIIPVIAKADT  152 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHT--------TSEEEEEETTGGG
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHh--------cCcEEEEEecccc
Confidence            00                      00123468888998865 2222111 233333332        3689999999998


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      ....+.....+.+.......+ +.++.
T Consensus       153 lt~~e~~~~k~~i~~~l~~~~-i~i~~  178 (270)
T 3sop_A          153 MTLEEKSEFKQRVRKELEVNG-IEFYP  178 (270)
T ss_dssp             SCHHHHHHHHHHHHHHHHHTT-CCCSS
T ss_pred             CCHHHHHHHHHHHHHHHHHcC-ccccC
Confidence            764334444455555555555 55543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.06  E-value=2e-11  Score=94.44  Aligned_cols=140  Identities=18%  Similarity=0.187  Sum_probs=80.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC------cCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc-------c
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN------KFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG-------S   79 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-------~   79 (210)
                      .+|+++|.+|+|||||+|+|++.      .......++++.+..  .......   +.++||||........       .
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~--~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMI--EIPLESG---ATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEE--EEECSTT---CEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeE--EEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHH
Confidence            57999999999999999999975      222233334433332  2333322   7899999954322111       1


Q ss_pred             ccc---cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCC
Q 028305           80 AFY---RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNI  156 (210)
Q Consensus        80 ~~~---~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      ..+   +..+.++++++......+..+..    +    ......+.|+++++||.|...   ..........+.+..+ .
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l----~~l~~~~~~~~~v~~k~d~~~---~~~~~~~~~~~~~~~g-~  305 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLAR----L----DYIKGGRRSFVCYMANELTVH---RTKLEKADSLYANQLG-E  305 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTEE----E----EEEESSSEEEEEEECTTSCEE---EEEGGGHHHHHHHHBT-T
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEEE----E----EEccCCCceEEEEecCCcccc---cccHHHHHHHHHHhcC-C
Confidence            112   56789999998743211111111    1    011112679999999999865   3333344444455555 5


Q ss_pred             cEEEecCCCCCCh
Q 028305          157 PYFETSAKEDCNI  169 (210)
Q Consensus       157 ~~~~~Sa~~~~~v  169 (210)
                      .+.+.++.+..++
T Consensus       306 ~l~p~~~~~~~~~  318 (369)
T 3ec1_A          306 LLSPPSKRYAAEF  318 (369)
T ss_dssp             TBCSSCGGGTTTC
T ss_pred             ccCCCCchhhhhc
Confidence            6666666654444

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.02  E-value=1.7e-10  Score=92.12  Aligned_cols=153  Identities=18%  Similarity=0.153  Sum_probs=83.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh------hCcCC----Cccccee-----------eeEEEEEEEE-------------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV------YNKFS----QQYKATI-----------GADFVTKELQ-------------   55 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~------~~~~~----~~~~~~~-----------~~~~~~~~~~-------------   55 (210)
                      ..+..|+|+|.+||||||++++|.      +....    +.+.+..           +..+......             
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            457789999999999999999988      22211    0000000           0111110000             


Q ss_pred             eCCeEEEEEEEeCCCcccccc-c---cccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE-EEEE
Q 028305           56 MDDKLVTLQIWDTAGQERFQS-L---GSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF-VLLG  128 (210)
Q Consensus        56 ~~~~~~~~~i~D~~g~~~~~~-~---~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~-ilv~  128 (210)
                      .....+.+.|+||||...... .   ....  ...+|.+++|+|.........   ....+..        .+|+ ++|+
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~---~a~~~~~--------~~~i~gvVl  247 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA---QAKAFKD--------KVDVASVIV  247 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH---HHHHHHH--------HHCCCCEEE
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH---HHHHHHh--------hcCceEEEE
Confidence            000235689999999653211 1   1111  126899999999987533211   1222222        1364 8999


Q ss_pred             ecCCCCCCCCcccchHHHHHHHHHcC-----------------CCcEEEecCCCCCC-hHHHHHHHHHH
Q 028305          129 NKIDTDGGSSRVVPQKKALEWCAYRG-----------------NIPYFETSAKEDCN-IDEAFLCVAEI  179 (210)
Q Consensus       129 ~K~D~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~Sa~~~~~-v~~~~~~l~~~  179 (210)
                      ||+|......      .........+                 ..+.+.+|+..|.| +.++++++.+.
T Consensus       248 NK~D~~~~~g------~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          248 TKLDGHAKGG------GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             ECTTSCCCCT------HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             eCCccccchH------HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            9999864311      1111222222                 11234578999999 99999998776

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.02  E-value=7.3e-10  Score=85.59  Aligned_cols=101  Identities=16%  Similarity=0.072  Sum_probs=73.2

Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHH
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALE  148 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~  148 (210)
                      ..++|......+.+.++++++|+|++++.     ..|...+.+...     +.|+++|+||+|+.+... .....+....
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-----~~p~ilV~NK~DL~~~~~~~~~~~~~l~~  124 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-----NNKVLLVGNKADLIPKSVKHDKVKHWMRY  124 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-----SSCEEEEEECGGGSCTTSCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-----CCcEEEEEEChhcCCcccCHHHHHHHHHH
Confidence            45678888888888999999999999863     455566665543     679999999999975321 1122233344


Q ss_pred             HHHHcCC--CcEEEecCCCCCChHHHHHHHHHHH
Q 028305          149 WCAYRGN--IPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       149 ~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      .++..+.  ..++.+||++|.|++++++.+.+..
T Consensus       125 ~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          125 SAKQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHHHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            4555562  2799999999999999999987643

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.95  E-value=6e-11  Score=91.63  Aligned_cols=135  Identities=16%  Similarity=0.148  Sum_probs=73.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccc----cc-
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLG----SA-   80 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~----~~-   80 (210)
                      .+|+++|.+|+|||||+|+|++....       ....++++..  ...+.....   +.++||||........    .. 
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~--~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~  235 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLD--LIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQS  235 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----C--EEEEESSSS---CEEEECCCBCCTTSGGGGSCHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecc--eEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHH
Confidence            57999999999999999999975311       1222233222  223333332   7899999954332111    11 


Q ss_pred             ---c--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCC
Q 028305           81 ---F--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGN  155 (210)
Q Consensus        81 ---~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                         +  .+..+.++++++.........+..    +    ......+.|+++++||.|...   ..........+.+..+ 
T Consensus       236 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~----d~l~~~~~~~~~v~nk~d~~~---~~~~~~~~~~~~~~~g-  303 (368)
T 3h2y_A          236 LKLITPTKEIKPMVFQLNEEQTLFFSGLAR----F----DYVSGGRRAFTCHFSNRLTIH---RTKLEKADELYKNHAG-  303 (368)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTEE----E----EEEESSSEEEEEEECTTSCEE---EEEHHHHHHHHHHHBT-
T ss_pred             HHHhccccccCceEEEEcCCCEEEEcceEE----E----EEecCCCceEEEEecCccccc---cccHHHHHHHHHHHhC-
Confidence               1  245678888887632211111110    1    011112679999999999875   2333333444444455 


Q ss_pred             CcEEEecCC
Q 028305          156 IPYFETSAK  164 (210)
Q Consensus       156 ~~~~~~Sa~  164 (210)
                      ..+.+.++.
T Consensus       304 ~~l~p~~~~  312 (368)
T 3h2y_A          304 DLLSPPTPE  312 (368)
T ss_dssp             TTBCSSCHH
T ss_pred             CccCCCchh
Confidence            455555543

>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=98.93  E-value=1.2e-08  Score=79.69  Aligned_cols=164  Identities=14%  Similarity=0.142  Sum_probs=87.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-cceeeeEE--EEEEEEeCCeEEEEEEEeCCCccccccccccc-----c
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-KATIGADF--VTKELQMDDKLVTLQIWDTAGQERFQSLGSAF-----Y   82 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~-----~   82 (210)
                      ....++|+|++|||||||+|.+.+...+..- ....+.+.  ...... ....-.+.+||++|..........+     +
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q-~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L  146 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYK-HPNIPNVVFWDLPGIGSTNFPPDTYLEKMKF  146 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEE-CSSCTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecc-ccccCCeeehHhhcccchHHHHHHHHHHcCC
Confidence            4458999999999999999999874322110 00001110  001111 1111247899999854221111111     2


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC---------CCCCcccchHHHHHHH---
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD---------GGSSRVVPQKKALEWC---  150 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~---------~~~~~~~~~~~~~~~~---  150 (210)
                      ...+.+++ ++...... .. ......+...       +.|+++|.||.|+.         +...+....+.++.+.   
T Consensus       147 ~~~~~~~~-lS~G~~~k-qr-v~la~aL~~~-------~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~  216 (413)
T 1tq4_A          147 YEYDFFII-ISATRFKK-ND-IDIAKAISMM-------KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNT  216 (413)
T ss_dssp             GGCSEEEE-EESSCCCH-HH-HHHHHHHHHT-------TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHH
T ss_pred             CccCCeEE-eCCCCccH-HH-HHHHHHHHhc-------CCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHH
Confidence            33455554 66652111 11 1122222221       66999999999962         1111222333444443   


Q ss_pred             -HHc--CCCcEEEecC--CCCCChHHHHHHHHHHHHhccc
Q 028305          151 -AYR--GNIPYFETSA--KEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       151 -~~~--~~~~~~~~Sa--~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                       ...  ....++.+|+  ..+.|++++.+.+.+.+.+..+
T Consensus       217 l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~~  256 (413)
T 1tq4_A          217 FRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  256 (413)
T ss_dssp             HHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             HHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCccchh
Confidence             122  1246899999  6677899999999888766654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.89  E-value=2e-09  Score=83.25  Aligned_cols=101  Identities=15%  Similarity=0.088  Sum_probs=72.1

Q ss_pred             CcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHH
Q 028305           70 GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALE  148 (210)
Q Consensus        70 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~  148 (210)
                      .++.|......+...++++++|+|++++.+     .|...+.+...     +.|+++|+||+|+.+... .....+....
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-----~~piilV~NK~DLl~~~~~~~~~~~~l~~  126 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-----DNPILLVGNKADLLPRSVKYPKLLRWMRR  126 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-----TSCEEEEEECGGGSCTTCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-----CCCEEEEEEChhcCCCccCHHHHHHHHHH
Confidence            477888888888889999999999999763     34444444433     679999999999975321 1222233344


Q ss_pred             HHHHcCC--CcEEEecCCCCCChHHHHHHHHHHH
Q 028305          149 WCAYRGN--IPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       149 ~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      .++..+.  ..++.+||++|.|++++++.+.+..
T Consensus       127 ~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          127 MAEELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HHHTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHHHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            4555553  3789999999999999999987654

>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=98.80  E-value=1.5e-08  Score=75.51  Aligned_cols=99  Identities=13%  Similarity=0.115  Sum_probs=69.1

Q ss_pred             eCCCcc-cccccccccccCCcEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccch
Q 028305           67 DTAGQE-RFQSLGSAFYRGADCCVLVYDVNVQKTFES--LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQ  143 (210)
Q Consensus        67 D~~g~~-~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~  143 (210)
                      ..|||. .........+..+|+++.|+|+.+|.+...  +..+.       .     +.|.++|+||+|+.+.   . ..
T Consensus         5 w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l-------~-----~kp~ilVlNK~DL~~~---~-~~   68 (282)
T 1puj_A            5 WFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL-------K-----NKPRIMLLNKADKADA---A-VT   68 (282)
T ss_dssp             ----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC-------S-----SSCEEEEEECGGGSCH---H-HH
T ss_pred             CCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH-------C-----CCCEEEEEECcccCCH---H-HH
Confidence            578876 445556677899999999999999876542  33322       1     6799999999999752   1 12


Q ss_pred             HHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          144 KKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +....+.+..+ .+++.+||+++.|++++++.+.+.+..
T Consensus        69 ~~~~~~~~~~g-~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           69 QQWKEHFENQG-IRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HHHHHHHHTTT-CCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-CcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            22333444445 689999999999999999988887754

>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=98.65  E-value=3e-08  Score=73.80  Aligned_cols=58  Identities=19%  Similarity=0.358  Sum_probs=35.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   72 (210)
                      ...++|+++|.||+|||||+|+|.+.... ....++++....  .+....   .+.+|||||..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~--~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ--WVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------C--CEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeE--EEEeCC---CEEEEECcCcC
Confidence            45789999999999999999999976532 223333332221  222222   48899999954

>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=98.60  E-value=1.7e-07  Score=73.63  Aligned_cols=141  Identities=19%  Similarity=0.169  Sum_probs=76.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh------CcCC----Ccccc-----------eeeeEEEEEEEEeC------------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY------NKFS----QQYKA-----------TIGADFVTKELQMD------------   57 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~------~~~~----~~~~~-----------~~~~~~~~~~~~~~------------   57 (210)
                      .+..|+++|++|+||||++..|..      ....    +.+.+           ..+...+......+            
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            478899999999999999988762      1110    00000           00111110000000            


Q ss_pred             -CeEEEEEEEeCCCcccccccc----c--ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEec
Q 028305           58 -DKLVTLQIWDTAGQERFQSLG----S--AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK  130 (210)
Q Consensus        58 -~~~~~~~i~D~~g~~~~~~~~----~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K  130 (210)
                       ...+.+.++||+|........    .  .....+|.+++|+|.........   ....+...       -.+..+|+||
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~---~a~~f~~~-------~~i~gVIlTK  248 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYN---QALAFKEA-------TPIGSIIVTK  248 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHH---HHHHHHHS-------CTTEEEEEEC
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHH---HHHHHHhh-------CCCeEEEEEC
Confidence             012568899999943211111    0  11235799999999876543322   22333322       2256799999


Q ss_pred             CCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305          131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus       131 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      .|....      ...+.......+ .++.+++.  |++++
T Consensus       249 lD~~~~------gG~~ls~~~~~g-~PI~fig~--Ge~vd  279 (443)
T 3dm5_A          249 LDGSAK------GGGALSAVAATG-APIKFIGT--GEKID  279 (443)
T ss_dssp             CSSCSS------HHHHHHHHHTTC-CCEEEEEC--SSSTT
T ss_pred             CCCccc------ccHHHHHHHHHC-CCEEEEEc--CCChH
Confidence            998643      223444444555 78877765  66555

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.57  E-value=2.3e-08  Score=73.69  Aligned_cols=56  Identities=20%  Similarity=0.357  Sum_probs=34.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ++++++|.+|+|||||+|+|.+..... ...++++...  ..+..+.   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~~g~T~~~--~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKGI--QWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------CCS--CEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCCCCCccce--EEEEeCC---CEEEEECCCccc
Confidence            699999999999999999999766532 2222222211  1222222   488999999654

>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=98.45  E-value=9.3e-08  Score=77.73  Aligned_cols=64  Identities=22%  Similarity=0.157  Sum_probs=39.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcc-----cceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQY-----KATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ..+.++|+|+|.||+|||||+|+|++....-..     ..+.+.......+ .......+.++||||...
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~-~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeeccc-ccCCCceEEEecCCCcCc
Confidence            456789999999999999999999987632111     1111111110001 012234688999999654

>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=98.38  E-value=2.3e-07  Score=72.75  Aligned_cols=91  Identities=19%  Similarity=0.128  Sum_probs=52.6

Q ss_pred             EEEEEEeCCCccc--ccc----ccccc--ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCC
Q 028305           61 VTLQIWDTAGQER--FQS----LGSAF--YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID  132 (210)
Q Consensus        61 ~~~~i~D~~g~~~--~~~----~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D  132 (210)
                      +.+.++||||...  ...    .....  ....+.+++|+|.........   ....+...       -.+..+|+||.|
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~-------~~~~gVIlTKlD  249 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQA-------SPIGSVIITKMD  249 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHH-------CSSEEEEEECGG
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhcc-------cCCcEEEEeccc
Confidence            5688999999533  111    11111  124689999999976533222   22333322       236789999999


Q ss_pred             CCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305          133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      ....      ...........+ .++.+++.  |++++
T Consensus       250 ~~a~------~G~als~~~~~g-~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          250 GTAK------GGGALSAVVATG-ATIKFIGT--GEKID  278 (433)
T ss_dssp             GCSC------HHHHHHHHHHHT-CEEEEEEC--CSSSS
T ss_pred             cccc------chHHHHHHHHHC-CCEEEEEC--CCChH
Confidence            7632      233444445556 78877775  66653

>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=98.38  E-value=5.6e-07  Score=70.80  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+..|+++|++|+||||++..|..
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~  121 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLAR  121 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998864

>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=98.30  E-value=2e-06  Score=64.48  Aligned_cols=92  Identities=23%  Similarity=0.162  Sum_probs=53.7

Q ss_pred             EEEEEEeCCCccc--ccc-ccc-----ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecC
Q 028305           61 VTLQIWDTAGQER--FQS-LGS-----AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKI  131 (210)
Q Consensus        61 ~~~~i~D~~g~~~--~~~-~~~-----~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~  131 (210)
                      +.+.++||||...  ... ...     .....+|.+++|+|.....   ........+..        ..| ..+|.||.
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~--------~~~i~gvVlnk~  249 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ--------ASKIGTIIITKM  249 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH--------TCTTEEEEEECG
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh--------hCCCCEEEEeCC
Confidence            5689999999654  211 111     1234689999999986432   22222223322        234 77899999


Q ss_pred             CCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305          132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       132 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |....      ...........+ .++..++  .|++++++
T Consensus       250 D~~~~------~g~~~~~~~~~~-~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          250 DGTAK------GGGALSAVAATG-ATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             GGCTT------HHHHHHHHHTTT-CCEEEEE--CSSSTTCE
T ss_pred             CCCcc------hHHHHHHHHHHC-cCEEEEe--CCCChhhc
Confidence            97532      233445556665 7777775  56666543

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.28  E-value=4.1e-07  Score=66.94  Aligned_cols=93  Identities=16%  Similarity=0.027  Sum_probs=60.2

Q ss_pred             CCCcccc-cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHH
Q 028305           68 TAGQERF-QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKA  146 (210)
Q Consensus        68 ~~g~~~~-~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~  146 (210)
                      .|||... .......++++|+++.|+|+.+|.+....     .+. ..      ++|.++|+||+|+.+.   .. .+..
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~-----~l~-ll------~k~~iivlNK~DL~~~---~~-~~~~   67 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY-----GVD-FS------RKETIILLNKVDIADE---KT-TKKW   67 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT-----TSC-CT------TSEEEEEEECGGGSCH---HH-HHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh-----HHH-hc------CCCcEEEEECccCCCH---HH-HHHH
Confidence            4776633 34556678899999999999988655321     010 00      5699999999999752   11 2233


Q ss_pred             HHHHHHcCCCcEEEecCCCCCChHHHHHHHHH
Q 028305          147 LEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE  178 (210)
Q Consensus       147 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  178 (210)
                      ..+.+..+ .++ .+||+++.|++++++.+.+
T Consensus        68 ~~~~~~~g-~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           68 VEFFKKQG-KRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HHHHHHTT-CCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HHHHHHcC-CeE-EEECCCCcCHHHHHHHHHH
Confidence            33444445 677 9999999999999887654

>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=98.23  E-value=1.3e-06  Score=65.53  Aligned_cols=88  Identities=14%  Similarity=0.029  Sum_probs=57.5

Q ss_pred             cccccCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           79 SAFYRGADCCVLVYDVNVQKT-FESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ...+.++|.+++|+|+.+|.. ...+.+++......       ++|.++|+||+|+.+........+......+..+ .+
T Consensus        81 R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~~-------~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g-~~  152 (307)
T 1t9h_A           81 RPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEAN-------DIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIG-YD  152 (307)
T ss_dssp             TTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTT-------TCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT-CC
T ss_pred             HHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHHC-------CCCEEEEEECCccCchhhhHHHHHHHHHHHHhCC-Ce
Confidence            345789999999999997754 33344444333221       6789999999999764100011233444444556 78


Q ss_pred             EEEecCCCCCChHHHHH
Q 028305          158 YFETSAKEDCNIDEAFL  174 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~  174 (210)
                      ++.+|+.++.|+++++.
T Consensus       153 v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          153 VYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EEECCHHHHTTCTTTGG
T ss_pred             EEEEecCCCCCHHHHHh
Confidence            99999998888775544

>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=98.07  E-value=1.4e-05  Score=60.60  Aligned_cols=143  Identities=15%  Similarity=0.138  Sum_probs=74.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-cccee--------------------eeEEEEEEEEeC-----------
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATI--------------------GADFVTKELQMD-----------   57 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~--------------------~~~~~~~~~~~~-----------   57 (210)
                      .+.--++++|+.||||||+++.|.+.-.... .....                    +..+.......+           
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~  206 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQH  206 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHH
Confidence            4567899999999999999998863211100 00000                    000100000000           


Q ss_pred             --CeEEEEEEEeCCCccccccccccc------ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEe
Q 028305           58 --DKLVTLQIWDTAGQERFQSLGSAF------YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN  129 (210)
Q Consensus        58 --~~~~~~~i~D~~g~~~~~~~~~~~------~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~  129 (210)
                        .....+.++|++|...........      .-..|..+++.|.....   .+......+.+..      + ..++++|
T Consensus       207 ~~~~~~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~------~-it~iilT  276 (328)
T 3e70_C          207 AKARGIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAV------K-IDGIILT  276 (328)
T ss_dssp             HHHHTCSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHS------C-CCEEEEE
T ss_pred             HHhccchhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhc------C-CCEEEEe
Confidence              011335678999954322211111      12368899999976543   2223333343322      2 3478889


Q ss_pred             cCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305          130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus       130 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      |.|....      ...........+ .++..++  +|+++++
T Consensus       277 KlD~~a~------~G~~l~~~~~~~-~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          277 KLDADAR------GGAALSISYVID-APILFVG--VGQGYDD  309 (328)
T ss_dssp             CGGGCSC------CHHHHHHHHHHT-CCEEEEE--CSSSTTC
T ss_pred             CcCCccc------hhHHHHHHHHHC-CCEEEEe--CCCCccc
Confidence            9996432      233445555566 7877776  6666654

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.07  E-value=8.2e-06  Score=67.08  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .|+|+|+.|||||||++.+.+-.
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            49999999999999999998764

>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=98.01  E-value=5.2e-05  Score=58.03  Aligned_cols=85  Identities=11%  Similarity=0.037  Sum_probs=54.7

Q ss_pred             cccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           81 FYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+.++|.+++|.... |. +...+..++......       ++|.++|+||+|+.+.... ...+.........+ ++++
T Consensus       127 i~anvD~v~iv~a~~-P~~~~~~i~r~L~~a~~~-------~~~~iivlNK~DL~~~~~~-~~~~~~~~~y~~~G-~~v~  196 (358)
T 2rcn_A          127 IAANIDQIVIVSAIL-PELSLNIIDRYLVGCETL-------QVEPLIVLNKIDLLDDEGM-DFVNEQMDIYRNIG-YRVL  196 (358)
T ss_dssp             EEECCCEEEEEEEST-TTCCHHHHHHHHHHHHHH-------TCEEEEEEECGGGCCHHHH-HHHHHHHHHHHTTT-CCEE
T ss_pred             HHhcCCEEEEEEeCC-CCCCHHHHHHHHHHHHhc-------CCCEEEEEECccCCCchhH-HHHHHHHHHHHhCC-CcEE
Confidence            467899999887654 54 334455554433332       6688999999999753100 00122223334455 7899


Q ss_pred             EecCCCCCChHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLC  175 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~  175 (210)
                      .+|+.++.|++++...
T Consensus       197 ~~Sa~~~~gl~~L~~~  212 (358)
T 2rcn_A          197 MVSSHTQDGLKPLEEA  212 (358)
T ss_dssp             ECBTTTTBTHHHHHHH
T ss_pred             EEecCCCcCHHHHHHh
Confidence            9999999999987654

>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=97.98  E-value=4.3e-07  Score=72.49  Aligned_cols=102  Identities=13%  Similarity=0.010  Sum_probs=57.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc--ccccc--------c
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER--FQSLG--------S   79 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~--------~   79 (210)
                      ...+.|+++|.+||||||+.++|...... ...++.............+......+||..|...  ....+        .
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~-~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~  115 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVR  115 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhc-cCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            45679999999999999999998743211 1111111000000000011112346789888632  22222        4


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHh
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQ  113 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~  113 (210)
                      .++...++.++|+|.++. +.+....|...+...
T Consensus       116 ~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          116 KFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc
Confidence            455567888999999987 455556666655543

>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=97.91  E-value=1.3e-05  Score=63.07  Aligned_cols=27  Identities=26%  Similarity=0.321  Sum_probs=23.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+..-|.|+|++++|||+|+|+|++.
T Consensus        64 ~~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             TSBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHhhh
Confidence            457788999999999999999999863

>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=97.65  E-value=2.8e-05  Score=53.75  Aligned_cols=22  Identities=45%  Similarity=0.815  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +++++|++|||||||++.+.+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988754

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.56  E-value=4.4e-05  Score=52.76  Aligned_cols=22  Identities=27%  Similarity=0.652  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|+|++|||||||++.|.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998853

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.51  E-value=5.4e-05  Score=53.20  Aligned_cols=21  Identities=33%  Similarity=0.646  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++|+|++|||||||++.|.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.51  E-value=6.5e-05  Score=53.17  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ......|+++|+.|||||||++.|.+
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34556899999999999999998875

>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=97.47  E-value=9.4e-05  Score=50.68  Aligned_cols=25  Identities=20%  Similarity=0.373  Sum_probs=21.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+++|++||||||+.+.|..
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3445799999999999999998864

>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=97.44  E-value=9e-05  Score=51.91  Aligned_cols=27  Identities=22%  Similarity=0.479  Sum_probs=22.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ....--|+|+|++|+|||||++.|...
T Consensus        16 ~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           16 FQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            334456899999999999999999854

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.42  E-value=8e-05  Score=52.34  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|++|||||||++.|.+.
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            4899999999999999998864

>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=8.6e-05  Score=51.59  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.|+++|++|||||||++.|.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999999865

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.39  E-value=0.00012  Score=51.78  Aligned_cols=27  Identities=26%  Similarity=0.326  Sum_probs=22.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ......|+|+|++|||||||++.|.+.
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345678999999999999999988743

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.37  E-value=7.9e-05  Score=51.03  Aligned_cols=20  Identities=30%  Similarity=0.637  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999644

>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=97.37  E-value=4.9e-05  Score=57.02  Aligned_cols=24  Identities=38%  Similarity=0.523  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -.++|+|++|+|||||+|.|.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            378999999999999999998643

>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=97.35  E-value=0.00011  Score=51.96  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|+|+.|||||||++.+.+-
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4789999999999999998754

>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=97.35  E-value=0.00011  Score=52.42  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++|+|+.|||||||++.|.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58899999999999999988643

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.34  E-value=0.00046  Score=54.36  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..+..|+++|.+|+||||++..|.
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA  121 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLG  121 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            456788999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.34  E-value=0.00011  Score=52.36  Aligned_cols=22  Identities=32%  Similarity=0.671  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.|.+.
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999998863

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.33  E-value=0.00013  Score=51.26  Aligned_cols=25  Identities=32%  Similarity=0.442  Sum_probs=20.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...-.|+|+|++|||||||++.|.+
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999998864

>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=97.32  E-value=0.00012  Score=51.71  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      --|+|+|++|||||||++.|....
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            358899999999999999998653

>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=97.31  E-value=0.00013  Score=50.61  Aligned_cols=21  Identities=29%  Similarity=0.676  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+||+|||||||+++|+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999854

>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=97.30  E-value=0.00015  Score=50.26  Aligned_cols=28  Identities=21%  Similarity=0.450  Sum_probs=22.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .......|+++|++||||||+.+.|...
T Consensus         6 ~~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            6 EQPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3334568999999999999999988754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.29  E-value=0.00015  Score=50.98  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ...|+|+|++||||||+++.|.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3468999999999999999988654

>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=97.28  E-value=0.00016  Score=48.92  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999999988654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.27  E-value=0.00019  Score=49.18  Aligned_cols=22  Identities=18%  Similarity=0.505  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+|.|++||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999885

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.25  E-value=0.00014  Score=51.09  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+|+|++||||||+.+.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.24  E-value=0.00017  Score=50.76  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-|+|+|++|||||||++.|...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            345899999999999999998753

>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=97.23  E-value=0.00017  Score=49.10  Aligned_cols=20  Identities=20%  Similarity=0.426  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHH
Q 028305           13 LKVIVLGDSGVGKTSLMNQY   32 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l   32 (210)
                      ..|+|+|++||||||+.+.|
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            35899999999999999998

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.23  E-value=0.00019  Score=48.98  Aligned_cols=21  Identities=24%  Similarity=0.528  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+++|++||||||+.+.|..
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999998874

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.22  E-value=0.00024  Score=49.80  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -.|+++|++||||||+.+.|..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998863

>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=97.21  E-value=0.00017  Score=52.02  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47999999999999999887543

>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=97.21  E-value=0.00026  Score=49.12  Aligned_cols=23  Identities=35%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|++||||||+.+.|..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=97.20  E-value=0.0002  Score=49.68  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++++|++|||||||++.|..
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            478999999999999999974

>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=97.19  E-value=0.00023  Score=51.70  Aligned_cols=22  Identities=32%  Similarity=0.691  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +..|+|+|++|||||||++.|.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999987

>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=97.19  E-value=0.00022  Score=48.51  Aligned_cols=21  Identities=14%  Similarity=0.139  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
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            689999999999999998864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.18  E-value=0.0002  Score=50.80  Aligned_cols=21  Identities=24%  Similarity=0.604  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ++|+|.|++||||||+.+.|.
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQII   21 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            369999999999999999885

>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=97.18  E-value=0.00022  Score=54.60  Aligned_cols=24  Identities=42%  Similarity=0.509  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      .++|+|++|+|||||+|.|.+...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            589999999999999999996543

>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=97.17  E-value=0.00021  Score=50.69  Aligned_cols=21  Identities=24%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ++|+|+|++||||||+.+.|.
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIV   21 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            369999999999999999885

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.16  E-value=0.00021  Score=51.17  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.15  E-value=0.00025  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988643

>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=97.14  E-value=0.00028  Score=49.49  Aligned_cols=27  Identities=26%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....++.|+|.|++||||||+.+.|..
T Consensus        16 ~~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           16 PRGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            345567899999999999999998864

>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=97.14  E-value=0.00023  Score=49.01  Aligned_cols=24  Identities=29%  Similarity=0.328  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.++++|++|+|||||++.+.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988753

>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=97.14  E-value=0.00032  Score=50.88  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=22.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..++.|+|.|++||||||+.+.|..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3678999999999999999998863

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.14  E-value=0.00023  Score=49.62  Aligned_cols=21  Identities=38%  Similarity=0.618  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++++|++|+|||||++.+.+
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

>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=97.14  E-value=0.00026  Score=50.04  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.|+|+|+|||||+|...+|..
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            3689999999999999988863

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.12  E-value=0.00026  Score=51.94  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      =.++|+|+.|||||||++.+.+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHH
Confidence            3689999999999999998875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.12  E-value=0.00036  Score=48.15  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+++|++||||||+.+.|..
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            45799999999999999998863

>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=97.11  E-value=0.00027  Score=50.24  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999988764

>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=97.11  E-value=0.00026  Score=52.33  Aligned_cols=23  Identities=30%  Similarity=0.522  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999887643

>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=97.11  E-value=0.00029  Score=52.76  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|++|+|||||++.|.+-
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhh
Confidence            6899999999999999988753

>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=97.10  E-value=0.00034  Score=48.51  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|++||||||+.+.|..
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            45799999999999999998864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.10  E-value=0.00027  Score=51.91  Aligned_cols=23  Identities=22%  Similarity=0.527  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999887643

>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=97.09  E-value=0.00036  Score=48.80  Aligned_cols=27  Identities=15%  Similarity=0.239  Sum_probs=22.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...+..|+|+|++||||||+.+.|...
T Consensus         5 ~~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            5 AKHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             -CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHHC
Confidence            345678999999999999999998764

>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=0.00033  Score=48.09  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-++|+|++|||||||+++|...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999854

>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=97.08  E-value=0.0086  Score=47.20  Aligned_cols=66  Identities=26%  Similarity=0.305  Sum_probs=41.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh------------------CcCCC---cccceeeeEEEEEEE---EeCCeEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY------------------NKFSQ---QYKATIGADFVTKEL---QMDDKLVTLQ   64 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~------------------~~~~~---~~~~~~~~~~~~~~~---~~~~~~~~~~   64 (210)
                      ..+..-|.|+|+.++|||+|+|.|+.                  ..|..   ....|.|+-.-...+   ..++....+.
T Consensus        64 ~~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vl  143 (457)
T 4ido_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVL  143 (457)
T ss_dssp             TSBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEE
T ss_pred             CCceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEE
Confidence            45677888999999999999996541                  12221   122233333221111   1256678899


Q ss_pred             EEeCCCcccc
Q 028305           65 IWDTAGQERF   74 (210)
Q Consensus        65 i~D~~g~~~~   74 (210)
                      ++||.|..+.
T Consensus       144 llDTEG~~d~  153 (457)
T 4ido_A          144 LMDTQGTFDS  153 (457)
T ss_dssp             EEEECCBTCT
T ss_pred             EEeccCCCCc
Confidence            9999995543

>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=97.08  E-value=0.00032  Score=50.72  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            5789999999999999988754

>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=0.00032  Score=49.27  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+|+|+|++||||||+.+.|..
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            3799999999999999999875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.07  E-value=0.00027  Score=50.06  Aligned_cols=22  Identities=36%  Similarity=0.373  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+.
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            4789999999999999998865

>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=97.06  E-value=0.0003  Score=51.52  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999887643

>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=97.06  E-value=0.00029  Score=51.80  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999888643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.06  E-value=0.00038  Score=48.26  Aligned_cols=21  Identities=33%  Similarity=0.430  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
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            689999999999999998864

>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=97.06  E-value=0.00041  Score=48.78  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.|+++|++||||||+.+.|..
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            5799999999999999999875

>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=97.05  E-value=0.00032  Score=50.40  Aligned_cols=23  Identities=35%  Similarity=0.439  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999888643

>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=97.05  E-value=0.00036  Score=50.64  Aligned_cols=23  Identities=22%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999987643

>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=97.05  E-value=0.00034  Score=47.94  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|++.|++||||||+.+.|..
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            3589999999999999999874

>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=97.04  E-value=0.00033  Score=51.46  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999988764

>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=97.04  E-value=0.00036  Score=50.73  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999887643

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.04  E-value=0.00042  Score=48.07  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +..|+|.|++||||||+.+.|..
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

>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=97.04  E-value=0.00035  Score=49.73  Aligned_cols=23  Identities=17%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|+|++||||||+.+.|..
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            46899999999999999998863

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.04  E-value=0.0005  Score=51.92  Aligned_cols=26  Identities=15%  Similarity=0.139  Sum_probs=22.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...++-|+|+|++|||||||++.|..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45678899999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.03  E-value=0.00035  Score=48.90  Aligned_cols=21  Identities=24%  Similarity=0.552  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999998874

>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=97.03  E-value=0.00034  Score=50.69  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999988864

>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=97.03  E-value=0.00041  Score=49.48  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+++|++||||||+.+.|..
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            4799999999999999998764

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=97.03  E-value=0.0061  Score=42.97  Aligned_cols=66  Identities=20%  Similarity=0.099  Sum_probs=45.4

Q ss_pred             EEEEEEeCCCc-ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           61 VTLQIWDTAGQ-ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        61 ~~~~i~D~~g~-~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                      +.+.++|+|+. ..  ......+..+|.+|++...+ ..+...+...+..+....      +.++.+|.|+.|...
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~------~~~~~vv~N~~~~~~  134 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG------NNRFRILLTIIPPYP  134 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC------SSSEEEEECSBCCTT
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc------CCCEEEEEEecCCcc
Confidence            56889999886 32  23345567899999998765 455566666666665432      456889999998653

>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=97.02  E-value=0.00052  Score=51.70  Aligned_cols=27  Identities=22%  Similarity=0.161  Sum_probs=23.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .....-|+|+|++|||||||++.|.+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhh
Confidence            456778999999999999999988753

>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=97.02  E-value=0.00035  Score=51.07  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999888643

>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=97.02  E-value=0.00034  Score=49.58  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998863

>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=97.02  E-value=0.00036  Score=50.83  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999988764

>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=97.02  E-value=0.00043  Score=50.44  Aligned_cols=28  Identities=21%  Similarity=0.229  Sum_probs=21.7

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +....++.|+|.|++||||||+.+.|..
T Consensus        17 ~~~~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           17 PNGGEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             ----CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3445678999999999999999998864

>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=97.02  E-value=0.00055  Score=48.20  Aligned_cols=26  Identities=19%  Similarity=0.253  Sum_probs=22.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .....|+++|++||||||+.+.|...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            44578999999999999999998753

>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=97.01  E-value=0.00037  Score=49.21  Aligned_cols=24  Identities=17%  Similarity=0.188  Sum_probs=20.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....|+|.|++||||||+.+.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998874

>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=97.01  E-value=0.00038  Score=50.71  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.00  E-value=0.00048  Score=48.51  Aligned_cols=23  Identities=22%  Similarity=0.138  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|++||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999874

>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=97.00  E-value=0.00038  Score=49.68  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|+|++|||||||++.+.+.
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            5889999999999999999863

>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=97.00  E-value=0.00056  Score=50.95  Aligned_cols=25  Identities=24%  Similarity=0.232  Sum_probs=22.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ......|+|+|++|||||||.+.|.
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHH
Confidence            4567899999999999999998765

>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=97.00  E-value=0.0004  Score=51.09  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999998864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.00  E-value=0.00052  Score=51.07  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+.-|+|.|++||||||+.+.|..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4467899999999999999999874

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.99  E-value=0.00041  Score=49.32  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=20.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+.|+|.|++||||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998863

>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=96.99  E-value=0.00045  Score=47.81  Aligned_cols=22  Identities=32%  Similarity=0.332  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+|.|++||||||+.+.|..
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            5799999999999999998864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.99  E-value=0.00042  Score=50.78  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            5799999999999999998864

>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=96.99  E-value=0.00045  Score=48.41  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=21.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|+|++||||||+.+.|..
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4456799999999999999998864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.98  E-value=0.00024  Score=51.02  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=14.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHh-hC
Q 028305           14 KVIVLGDSGVGKTSLMNQYV-YN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~-~~   35 (210)
                      -++|+|+.|||||||++.|. +.
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            58999999999999999988 54

>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=96.98  E-value=0.00036  Score=52.28  Aligned_cols=23  Identities=39%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|++|||||||+|.+.+..
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            57899999999999999998654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.98  E-value=0.0004  Score=49.71  Aligned_cols=22  Identities=27%  Similarity=0.673  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...|+|.|++||||||+.+.|.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La   28 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRIT   28 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999999886

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.98  E-value=0.00048  Score=48.55  Aligned_cols=23  Identities=17%  Similarity=0.068  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|.+||||||+.+.|..
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            46799999999999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.97  E-value=0.0004  Score=51.23  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|+.|||||||++.+.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999887643

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.97  E-value=0.00046  Score=51.14  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999887643

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.97  E-value=0.00041  Score=50.63  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999888643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.96  E-value=0.00049  Score=47.47  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+++|++||||||+.+.|..
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            4799999999999999998863

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.96  E-value=0.00025  Score=48.55  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|++|||||||++.|.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988753

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.96  E-value=0.00067  Score=47.55  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=21.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|.|++||||||+.+.|..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4456899999999999999998863

>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=96.96  E-value=0.00043  Score=51.91  Aligned_cols=20  Identities=40%  Similarity=0.702  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      .++++|++|+|||||+|.|.
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            57999999999999999998

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.95  E-value=0.00058  Score=49.51  Aligned_cols=25  Identities=16%  Similarity=0.243  Sum_probs=21.5

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|+|+.|||||||++.|.+
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.94  E-value=0.00072  Score=46.72  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=22.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ......|+|+|.+||||||+.+.|..
T Consensus        10 ~~~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           10 IEKGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CSCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            34567899999999999999998864

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.94  E-value=0.00037  Score=46.54  Aligned_cols=22  Identities=32%  Similarity=0.643  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|++|+|||+|++.+.+.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.93  E-value=0.00046  Score=50.79  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999887643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.92  E-value=0.0005  Score=50.81  Aligned_cols=21  Identities=33%  Similarity=0.514  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999998853

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.91  E-value=0.00039  Score=49.59  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...|+|+|++||||||+.+.|.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La   26 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIK   26 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999886

>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=96.90  E-value=0.0005  Score=52.98  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-+++|+|++|||||||++.|.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.90  E-value=0.00057  Score=46.32  Aligned_cols=21  Identities=14%  Similarity=0.240  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.90  E-value=0.00058  Score=50.11  Aligned_cols=23  Identities=43%  Similarity=0.580  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988654

>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=96.89  E-value=0.00053  Score=52.61  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++|+|+.|||||||++.+.+
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            799999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.89  E-value=0.00055  Score=47.60  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|++||||||+.+.|..
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            45799999999999999998863

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.89  E-value=0.00084  Score=47.09  Aligned_cols=25  Identities=36%  Similarity=0.268  Sum_probs=21.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|+|++|||||||++.|..
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998864

>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=96.89  E-value=0.0006  Score=47.74  Aligned_cols=24  Identities=17%  Similarity=0.081  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...|+|.|++||||||+.+.|...
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            457999999999999999998754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.89  E-value=0.00056  Score=48.88  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998863

>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=96.88  E-value=0.00053  Score=47.13  Aligned_cols=22  Identities=36%  Similarity=0.649  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...|+++|++||||||+.+.|.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHH
Confidence            4568999999999999999886

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.87  E-value=0.00051  Score=46.99  Aligned_cols=21  Identities=24%  Similarity=0.483  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +|+|+|++||||||+.+.|..
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            599999999999999998863

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.86  E-value=0.00057  Score=49.84  Aligned_cols=26  Identities=23%  Similarity=0.399  Sum_probs=22.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...+..|+++|++||||||+.+.|..
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999998864

>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=96.85  E-value=0.00065  Score=49.45  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++++|++|+|||||++.+.+.
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            999999999999999998853

>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=96.85  E-value=0.00072  Score=46.08  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+.|+|++|||||||+.+|..
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            4689999999999999999884

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.84  E-value=0.00076  Score=46.35  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.+++.|++|+|||+|++.+...
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988743

>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=96.84  E-value=0.00044  Score=51.89  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.+.+-
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCchHHHHHHHHHcC
Confidence            5899999999999999887753

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.84  E-value=0.00042  Score=47.66  Aligned_cols=23  Identities=26%  Similarity=0.213  Sum_probs=16.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=96.82  E-value=0.00089  Score=50.31  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=21.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|+|+.|||||||++.|.+
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999998875

>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=96.81  E-value=0.00083  Score=49.19  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|.+||||||+.+.|..
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            35799999999999999998874

>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=96.79  E-value=0.00069  Score=51.90  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            37899999999999999888644

>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=96.79  E-value=0.00074  Score=50.29  Aligned_cols=22  Identities=36%  Similarity=0.490  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999988754

>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=96.79  E-value=0.0033  Score=47.91  Aligned_cols=20  Identities=20%  Similarity=0.414  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      +++.|++|+||||+++.+.+
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            99999999999999998876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.79  E-value=0.00074  Score=46.81  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|++.|.+||||||+.+.|..
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            589999999999999998874

>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=96.79  E-value=0.00078  Score=52.05  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      =.++|+|++|||||||++.+.+
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3699999999999999999875

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.78  E-value=0.00071  Score=47.14  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+|.|++||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>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=96.78  E-value=0.00076  Score=50.58  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=20.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..-.|+++|+.||||||+++.+.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~La  123 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLG  123 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHH
Confidence            34578999999999999999876

>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=96.77  E-value=0.001  Score=47.25  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+.|+|.|++||||||+.+.|..
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            46899999999999999998864

>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=96.77  E-value=0.00031  Score=49.61  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|.|++||||||+++.|..
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            489999999999999999874

>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=96.76  E-value=0.00073  Score=51.33  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.+.+-
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            6899999999999999998864

>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=96.75  E-value=0.00086  Score=48.19  Aligned_cols=24  Identities=21%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....|+|+|++||||||+.+.|..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998863

>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=96.75  E-value=0.00082  Score=51.58  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            36899999999999999887643

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.75  E-value=0.00086  Score=48.92  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|+|++|||||||.+.|..
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            489999999999999998863

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.75  E-value=0.0013  Score=46.84  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|+|+|||||+|...+|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999988863

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.74  E-value=0.00077  Score=51.84  Aligned_cols=22  Identities=36%  Similarity=0.706  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.+.+-
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            7899999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.74  E-value=0.00084  Score=51.40  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            37899999999999999888643

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.73  E-value=0.00088  Score=50.21  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..--++++|+.||||||+++.+.
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~La  121 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLA  121 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHH
Confidence            45578999999999999999876

>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=96.73  E-value=0.0011  Score=49.21  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=21.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..++.|+|.|++||||||+.+.|.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999999999886

>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=96.72  E-value=0.00086  Score=50.99  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.++++|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999998754

>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=96.72  E-value=0.00088  Score=51.38  Aligned_cols=23  Identities=35%  Similarity=0.325  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            36899999999999999888643

>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=96.72  E-value=0.00086  Score=52.55  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.+++.
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            5899999999999999998854

>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=96.71  E-value=0.00094  Score=45.41  Aligned_cols=21  Identities=19%  Similarity=0.436  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998863

>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=96.71  E-value=0.00091  Score=51.64  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            37899999999999999888643

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.71  E-value=0.00092  Score=51.32  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            36899999999999999888643

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.69  E-value=0.001  Score=48.46  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...|+|+|++||||||+.+.|.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999887

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.69  E-value=0.0054  Score=46.46  Aligned_cols=25  Identities=36%  Similarity=0.589  Sum_probs=21.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ....|++.|++|+|||+|++.+...
T Consensus        54 ~~~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           54 CLDHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHH
Confidence            3446999999999999999998643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.69  E-value=0.00098  Score=49.22  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++++|++|+|||||++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999998853

>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=96.68  E-value=0.001  Score=47.88  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .++.|++.|++||||||+.+.|.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35789999999999999999876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.67  E-value=0.001  Score=47.39  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|++|+|||||++.+...
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998743

>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=96.66  E-value=0.001  Score=51.35  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            37899999999999999988653

>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=96.66  E-value=0.001  Score=45.78  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|+|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988863

>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=51.20  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46899999999999999887543

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.64  E-value=0.001  Score=53.59  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|++|||||||++.+.+--
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999988543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.63  E-value=0.00094  Score=45.73  Aligned_cols=24  Identities=38%  Similarity=0.602  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.++|.|++|+|||+|++.+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988743

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.63  E-value=0.0013  Score=44.56  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998753

>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=96.60  E-value=0.0016  Score=44.70  Aligned_cols=23  Identities=30%  Similarity=0.219  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|+++|.+||||||+.+.|..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998875

>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=96.59  E-value=0.0014  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.670  Sum_probs=20.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHH
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQY   32 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l   32 (210)
                      ....||+++|.+|||||||++++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            46899999999999999999875

>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=96.59  E-value=0.00085  Score=51.26  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            47899999999999999888643

>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=96.58  E-value=0.0014  Score=46.85  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..-.++|.|++|+|||+|++.+..
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998874

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.58  E-value=0.0013  Score=47.87  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +-.+++.|++|+|||+|++.+.+.
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            446999999999999999998753

>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=96.56  E-value=0.0013  Score=49.07  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|+|++|+|||||+..+.+.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4789999999999999988754

>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=96.55  E-value=0.0017  Score=46.53  Aligned_cols=26  Identities=27%  Similarity=0.523  Sum_probs=22.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ....-|+|.|+.|||||||++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            44567999999999999999988754

>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=96.55  E-value=0.002  Score=44.94  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=22.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...+.|+++|.+||||||+.+.|..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4578899999999999999998874

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.54  E-value=0.0016  Score=45.49  Aligned_cols=23  Identities=30%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            67999999999999999988753

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.53  E-value=0.0012  Score=46.30  Aligned_cols=21  Identities=14%  Similarity=0.319  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+++.||||+|||+++.++..
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            589999999999999988874

>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=96.52  E-value=0.0014  Score=50.93  Aligned_cols=21  Identities=33%  Similarity=0.733  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++++|+.|||||||++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            478999999999999998875

>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=96.51  E-value=0.0021  Score=46.11  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...-|+|.|++||||||+++.|..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            456799999999999999998874

>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=96.50  E-value=0.0016  Score=46.07  Aligned_cols=21  Identities=33%  Similarity=0.232  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++++|++|+|||||+..+..
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            479999999999999999987

>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=96.50  E-value=0.0016  Score=46.78  Aligned_cols=22  Identities=18%  Similarity=0.295  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|+|++|+|||||+..+...
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            4789999999999999998864

>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=96.48  E-value=0.0022  Score=45.23  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+++|.+||||||+.+.|..
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998764

>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=96.46  E-value=0.00083  Score=51.44  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999888643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.46  E-value=0.0019  Score=48.20  Aligned_cols=26  Identities=19%  Similarity=0.194  Sum_probs=21.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+..+++.|+||+|||+|.+.+...
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44567888899999999999998753

>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=96.46  E-value=0.0013  Score=49.61  Aligned_cols=25  Identities=24%  Similarity=0.456  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .--++|+|+.|||||||++.+.+..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            3457899999999999999998653

>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=96.45  E-value=0.0018  Score=44.48  Aligned_cols=21  Identities=19%  Similarity=0.529  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -.+|+|+.|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.44  E-value=0.0019  Score=49.37  Aligned_cols=23  Identities=26%  Similarity=0.524  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      +++++|+.|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999988754

>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=96.43  E-value=0.002  Score=48.02  Aligned_cols=22  Identities=18%  Similarity=0.505  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|++.|++||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.43  E-value=0.0027  Score=48.72  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=21.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...--++++|+.||||||+++.|.+
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHh
Confidence            3456799999999999999998763

>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=96.42  E-value=0.0018  Score=50.06  Aligned_cols=24  Identities=21%  Similarity=0.162  Sum_probs=20.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..-.++++|++|+|||||++.+.+
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            344789999999999999999885

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.39  E-value=0.0018  Score=51.46  Aligned_cols=23  Identities=35%  Similarity=0.491  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.++|+|+.|||||||++.|.+-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            35899999999999999988754

>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=96.36  E-value=0.0028  Score=50.50  Aligned_cols=24  Identities=25%  Similarity=0.574  Sum_probs=20.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...--++|+|+.|||||||++.|.
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LA  314 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLA  314 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHH
Confidence            345678999999999999999876

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.33  E-value=0.0023  Score=42.30  Aligned_cols=26  Identities=15%  Similarity=0.148  Sum_probs=21.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ....|++.|++|+|||++.+.+....
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            34569999999999999999987543

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.32  E-value=0.0023  Score=46.53  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -.|+++|++||||||+.+.|..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998863

>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=96.32  E-value=0.0033  Score=46.17  Aligned_cols=27  Identities=30%  Similarity=0.422  Sum_probs=23.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ......+++.|++|+|||+|++.+...
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            456778999999999999999998753

>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=96.31  E-value=0.0023  Score=45.58  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++|.|++|+|||+|++.+..
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            589999999999999998864

>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=96.31  E-value=0.0024  Score=44.92  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+++.|++|+|||+|++.+..
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            399999999999999998874

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.31  E-value=0.0025  Score=47.07  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=21.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.+++.|++|+|||+|++.+...
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            4456999999999999999998753

>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=96.31  E-value=0.0024  Score=42.58  Aligned_cols=19  Identities=32%  Similarity=0.770  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      .+|+|+.|+|||||+.++.
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            5799999999999999875

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.30  E-value=0.0025  Score=47.40  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=21.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..-.+++.|++|+|||+|++.+..
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHH
Confidence            356799999999999999999875

>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=96.29  E-value=0.0027  Score=46.18  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=20.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..-.|++.|++|+|||+|++.+..
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999999999875

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.28  E-value=0.0027  Score=45.49  Aligned_cols=23  Identities=30%  Similarity=0.530  Sum_probs=19.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..+++.|+|+|||||||+..+|.
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~   29 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIK   29 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHH
Confidence            46789999999999999998875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.26  E-value=0.003  Score=47.19  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .....++|.|++|+|||++++.+.
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la   88 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMA   88 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHH
Confidence            445679999999999999998665

>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=96.22  E-value=0.0026  Score=46.95  Aligned_cols=21  Identities=24%  Similarity=0.246  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++|+|++|+|||||+..+..
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            578999999999999998874

>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=96.21  E-value=0.0027  Score=47.48  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.|++.|++|+|||+|++.+...
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHHH
Confidence            3456999999999999999998853

>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=96.21  E-value=0.0027  Score=47.93  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.+++.|++|+|||+|++.+...
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346899999999999999988753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.21  E-value=0.0029  Score=45.47  Aligned_cols=26  Identities=12%  Similarity=0.293  Sum_probs=21.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ......|+|+|++||||||+.+.|..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999988764

>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=96.19  E-value=0.0028  Score=50.48  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++|+|+.|||||||++.+.+
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            578999999999999998763

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.16  E-value=0.0045  Score=46.25  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=21.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +.-.++++|++|+|||++++.+...
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHH
Confidence            3457999999999999999988754

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.16  E-value=0.0032  Score=49.69  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      +++++|+.|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            68999999999999999888653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.15  E-value=0.0032  Score=51.04  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+..
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999988643

>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=96.13  E-value=0.0036  Score=43.74  Aligned_cols=23  Identities=43%  Similarity=0.647  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..|+|+|++|+|||+|...|...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999999854

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.12  E-value=0.0033  Score=45.25  Aligned_cols=21  Identities=33%  Similarity=0.689  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++++|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999887763

>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=96.11  E-value=0.0031  Score=51.68  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            6899999999999999988754

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.11  E-value=0.003  Score=51.18  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999988643

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.07  E-value=0.0024  Score=42.19  Aligned_cols=23  Identities=13%  Similarity=0.206  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|++.|++|+|||++.+.+..
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCcEEEECCCCccHHHHHHHHHH
Confidence            34699999999999999988764

>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=96.05  E-value=0.0044  Score=48.56  Aligned_cols=24  Identities=25%  Similarity=0.456  Sum_probs=21.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+.-|+++|++||||||+.++|..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999999999874

>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=96.05  E-value=0.0041  Score=43.51  Aligned_cols=21  Identities=29%  Similarity=0.328  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++||||||+.+.|..
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            699999999999999998864

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.0041  Score=48.91  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=22.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+-.|++.||||+|||.|++++.+.
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            45678999999999999999998853

>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=96.04  E-value=0.003  Score=46.23  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=21.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .....|+|.|.+||||||+++.|..
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999998764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.0036  Score=51.47  Aligned_cols=23  Identities=17%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            58999999999999999988643

>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=96.02  E-value=0.0036  Score=51.26  Aligned_cols=22  Identities=32%  Similarity=0.572  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999988754

>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=96.02  E-value=0.0037  Score=47.83  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -+.|+|++|+|||||++.+...
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            5789999999999999998864

>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=96.02  E-value=0.0038  Score=46.61  Aligned_cols=22  Identities=23%  Similarity=0.540  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .-.|+++|++|+||||++..|.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA  126 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLA  126 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999998875

>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=96.02  E-value=0.004  Score=46.41  Aligned_cols=24  Identities=25%  Similarity=0.542  Sum_probs=20.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....+++.|++|+|||++++.+..
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998874

>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=96.01  E-value=0.0037  Score=47.97  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.++|.|++|+|||+|++.+...
T Consensus        44 ~~~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           44 KPNNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCCCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3447899999999999999998753

>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=96.00  E-value=0.0038  Score=47.43  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +++|.|++|+||||+++.+...
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3899999999999999988754

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.00  E-value=0.0046  Score=47.18  Aligned_cols=25  Identities=24%  Similarity=0.494  Sum_probs=20.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .....+|+++|++|+||||+.+.|.
T Consensus        21 ~g~~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           21 DNYRVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             TCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCeeEEEEECCCCCcHHHHHHHHH
Confidence            3445689999999999999998665

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0043  Score=48.70  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=22.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++-.|++.||||+|||+|++++.+.
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34557999999999999999998753

>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=95.95  E-value=0.0047  Score=47.56  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|.|++|+|||+|++.+....
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            79999999999999999987543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.95  E-value=0.0047  Score=46.67  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=21.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +.-.|++.|+||+|||+|++.+...
T Consensus        44 ~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           44 PWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHH
Confidence            3457999999999999999998854

>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=95.95  E-value=0.0059  Score=45.70  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.-|+|+||+|||||+|...|..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHH
Confidence            34688999999999999999873

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.94  E-value=0.0052  Score=44.26  Aligned_cols=23  Identities=17%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...|++.|..||||||+++.|..
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            35799999999999999998874

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.93  E-value=0.0049  Score=48.51  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=22.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++-.|++.||||+|||+|++++.+.
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            45678999999999999999998853

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.93  E-value=0.0035  Score=51.50  Aligned_cols=22  Identities=36%  Similarity=0.599  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            6899999999999999988753

>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=95.93  E-value=0.0049  Score=46.54  Aligned_cols=25  Identities=20%  Similarity=0.355  Sum_probs=21.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.|++.|+||+|||+|++.+...
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            4567999999999999999998753

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.92  E-value=0.003  Score=51.70  Aligned_cols=22  Identities=36%  Similarity=0.422  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5899999999999999877753

>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=95.91  E-value=0.0079  Score=45.10  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..--|+++|++|+||||++..|.
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA  125 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLA  125 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHH
Confidence            45578999999999999998875

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.90  E-value=0.0051  Score=46.40  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..|+|+|++|||||||...|..
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            3699999999999999998863

>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=95.89  E-value=0.0046  Score=50.82  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            58999999999999999988643

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.89  E-value=0.0047  Score=47.53  Aligned_cols=19  Identities=37%  Similarity=0.620  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      .+|+|+.|||||||++.+.
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            5599999999999999876

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.89  E-value=0.0048  Score=46.86  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-|+|+|++|||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4799999999999999998863

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.88  E-value=0.0051  Score=49.87  Aligned_cols=23  Identities=22%  Similarity=0.444  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|+.|||||||++.+.+..
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            47899999999999999998654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.87  E-value=0.0066  Score=43.32  Aligned_cols=29  Identities=17%  Similarity=0.163  Sum_probs=21.9

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++......-|+|.|.+||||||+++.|..
T Consensus        15 ~~~~~~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           15 QTQGPGSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             ----CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34455677899999999999999998763

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.86  E-value=0.0045  Score=50.13  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999988654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.85  E-value=0.0057  Score=45.92  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998874

>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=0.0055  Score=50.39  Aligned_cols=23  Identities=22%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++|+|+.|+|||||++.+.+..
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            47899999999999999988654

>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=95.82  E-value=0.0058  Score=42.00  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++|+|.++||||+|..+|...
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

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.82  E-value=0.0027  Score=47.31  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=17.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+-|+|.|+.||||||+.+.|..
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            45699999999999999998864

>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=95.79  E-value=0.0054  Score=46.61  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+++.|++|+|||++++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999988753

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.78  E-value=0.0041  Score=51.00  Aligned_cols=22  Identities=45%  Similarity=0.611  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999987753

>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=95.78  E-value=0.0063  Score=45.63  Aligned_cols=21  Identities=29%  Similarity=0.338  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|+||+|||||+|...|..
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            588999999999999999874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.76  E-value=0.0058  Score=47.47  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++-.|++.||||+|||.|.+++.+.
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHHh
Confidence            44567999999999999999998753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.75  E-value=0.005  Score=47.33  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=21.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...-.++|.|++|+|||+|++.+...
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            34457999999999999999988743

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.75  E-value=0.0061  Score=46.69  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -.++|.|+||+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988743

>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=95.74  E-value=0.0026  Score=46.60  Aligned_cols=21  Identities=33%  Similarity=0.488  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .+++.|++|+|||+|++.+..
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            489999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.70  E-value=0.0061  Score=48.55  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-+++++|+||+|||++++.+...
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHH
Confidence            347899999999999999987643

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.70  E-value=0.005  Score=46.38  Aligned_cols=27  Identities=11%  Similarity=0.039  Sum_probs=22.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ....-.+++.|+||+|||++++.+...
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v~~v~~~   68 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLVNDVMDE   68 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            345668899999999999999988743

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.69  E-value=0.007  Score=45.88  Aligned_cols=22  Identities=23%  Similarity=0.447  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-|+|+|++|||||+|...|..
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999874

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.67  E-value=0.092  Score=39.38  Aligned_cols=21  Identities=19%  Similarity=0.370  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +++.|++|+|||++++.+...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            455566999999999998743

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.67  E-value=0.0063  Score=50.03  Aligned_cols=23  Identities=26%  Similarity=0.522  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      ++++|+.|+|||||++.+.+-..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            79999999999999999886543

>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=95.66  E-value=0.0066  Score=46.53  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.|+|.|++|+|||+|++.+...
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Confidence            456999999999999999998753

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.66  E-value=0.0063  Score=48.08  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-.+++.|++|+|||+|++.+.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998874

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.66  E-value=0.0053  Score=43.40  Aligned_cols=23  Identities=13%  Similarity=0.355  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++.|++.|++||||||+.+.|..
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            35799999999999999988764

>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=95.64  E-value=0.0074  Score=42.76  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..-|+|.|++||||||+++.|.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~   27 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLA   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHH
Confidence            4578999999999999999886

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.63  E-value=0.0066  Score=48.69  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .|+++|++|+|||+|++.+.+.
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999998753

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.61  E-value=0.0066  Score=47.27  Aligned_cols=20  Identities=20%  Similarity=0.341  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -++|+|++|+|||||++.|.
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            47899999999999999876

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.60  E-value=0.0093  Score=40.64  Aligned_cols=24  Identities=21%  Similarity=0.473  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .-|++.|++|+||||+.-.|....
T Consensus        17 ~gvli~G~SGaGKStlal~L~~rG   40 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDRG   40 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            458999999999999999998643

>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=95.59  E-value=0.0065  Score=49.13  Aligned_cols=19  Identities=42%  Similarity=0.651  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      ++|+|++|||||||++.|+
T Consensus        42 ~~l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           42 TLVSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=95.58  E-value=0.0073  Score=48.11  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -.|+++|+||+|||+|++.+.+
T Consensus        50 ~gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999875

---

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	210
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-47
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	3e-46
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	5e-44
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	1e-43
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-40
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-40
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-38
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	3e-38
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	4e-38
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-37
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-37
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	3e-37
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	5e-37
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	9e-37
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-36
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-34
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	6e-33
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	6e-33
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	2e-32
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-32
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	3e-32
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	7e-32
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	2e-31
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-31
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-31
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-30
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-30
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	5e-30
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	7e-30
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	1e-29
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-29
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	4e-28
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	1e-27
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	5e-27
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-27
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	9e-27
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-26
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	1e-25
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-24
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	7e-23
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-22
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-22
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-22
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-21
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	3e-21
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-21
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	9e-21
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	4e-20
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	2e-19
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-19
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-18
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-18
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-18
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-17
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-17
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-13
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-11
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	3e-09
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	6e-08
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	4e-07
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	3e-06
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	3e-06
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	4e-06
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	8e-06
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	1e-04
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	2e-04
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	4e-04
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	0.001
d1htwa_	158	c.37.1.18 (A:) Hypothetical protein HI0065 {Haemop	0.004

>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 =  150 bits (380), Expect = 4e-47
 Identities = 63/173 (36%), Positives = 107/173 (61%), Gaps = 8/173 (4%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           +++K++++GDSGVGK+ L+ ++V +KF+  +  TIG DF  K + ++ K V LQIWDTAG
Sbjct: 1   SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG 60

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+++ +A+YRGA   +LVYD+  ++TF +++ W +   +      ++    +L+GNK
Sbjct: 61  QERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEH----ANDEAQLLLVGNK 116

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            D +      V      E  A    IP+ E+SAK D N++E F  +A++  + 
Sbjct: 117 SDME----TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 165

>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 =  148 bits (375), Expect = 3e-46
 Identities = 61/175 (34%), Positives = 104/175 (59%), Gaps = 7/175 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++GDSGVGKT ++ ++  + F+  + +TIG DF  + +++D K + LQIWDTAGQ
Sbjct: 6   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ 65

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ +A+YRGA   +LVYD+  +K+F++++NW    ++  +         ++LGNK 
Sbjct: 66  ERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNW----IRNIEEHASADVEKMILGNK- 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
                + +    K+  E  A    I + ETSAK + N++ AF  +A        K
Sbjct: 121 --CDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>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 =  143 bits (362), Expect = 5e-44
 Identities = 64/197 (32%), Positives = 113/197 (57%), Gaps = 13/197 (6%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G+SGVGK+ L+ ++  + ++  Y +TIG DF  K +++D K V LQIWDTAGQ
Sbjct: 6   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ 65

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++ S++YRG+   ++VYDV  Q++F  ++ W +E  +            +L+GNK 
Sbjct: 66  ERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRY----ATSTVLKLLVGNK- 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIYYQ 191
                  + V +    +  A    +P+ ETSA +  N+++AFL +A    ++  +     
Sbjct: 121 --CDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQ----- 173

Query: 192 PQGISETVSEVEQRGGC 208
            Q ++ET  + E +G  
Sbjct: 174 -QNLNETTQKKEDKGNV 189

>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 =  141 bits (357), Expect = 1e-43
 Identities = 62/172 (36%), Positives = 99/172 (57%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K++++G++GVGKT L+ ++    F     ATIG DF+ K ++++ + V LQIWDTAGQ
Sbjct: 5   LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YR A+  +L YD+  +++F  L  W  E  + A          VL+GNKI
Sbjct: 65  ERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYA----SNKVITVLVGNKI 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           D      R    ++  E  +   ++ Y ETSAKE  N+++ FL +A   +  
Sbjct: 121 DLA---ERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE 169

>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 =  134 bits (338), Expect = 1e-40
 Identities = 52/171 (30%), Positives = 100/171 (58%), Gaps = 7/171 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K++++G+S VGKTS + +Y  + F+  + +T+G DF  K +  +DK + LQIWDTAGQ
Sbjct: 5   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++++ +A+YRGA   +L+YD+  +++F ++Q+W  +    +     +    +L+GNK 
Sbjct: 65  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYS----WDNAQVLLVGNKC 120

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           D +        + +     A      +FE SAK++ N+ + F  + ++  +
Sbjct: 121 DMEDERVVSSERGR---QLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>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 =  133 bits (335), Expect = 3e-40
 Identities = 66/175 (37%), Positives = 108/175 (61%), Gaps = 7/175 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KV+++GDSGVGK++L++++  N+F+ + K+TIG +F T+ +Q+D K +  QIWDTAGQ
Sbjct: 4   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ 63

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ER++ + SA+YRGA   +LVYD+    T+E+++ W +E    AD         +L+GNK 
Sbjct: 64  ERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN----IVIMLVGNKS 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           D      R VP  +A  +   + N+ + ETSA +  N++EAF  +     +   +
Sbjct: 120 DLR--HLRAVPTDEARAFA-EKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQ 171

>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 =  128 bits (322), Expect = 2e-38
 Identities = 65/168 (38%), Positives = 99/168 (58%), Gaps = 8/168 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
             KV+++GDSGVGKT L+ ++    F +  + +T+G DF  K L +D   V LQ+WDTAG
Sbjct: 6   AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAG 65

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QERF+S+  A+YR A   +L+YDV  + +F+++Q W  E  + A          +LLGNK
Sbjct: 66  QERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHD----VALMLLGNK 121

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +D+       V +++  E  A    +P+ ETSAK   N+D AF  +A+
Sbjct: 122 VDSA---HERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAK 166

>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 =  128 bits (322), Expect = 3e-38
 Identities = 89/174 (51%), Positives = 120/174 (68%), Gaps = 3/174 (1%)

Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDT 68
           + +L KVI+LGD GVGK+SLMN+YV NKF  Q   TIG +F+ K+L++D   VT+QIWDT
Sbjct: 3   KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDT 62

Query: 69  AGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLG 128
           AGQERF+SL + FYRG+DCC+L + V+  ++F++L NW++EF+  AD  E E+ PFV+LG
Sbjct: 63  AGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILG 122

Query: 129 NKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           NKID      R V  ++A  WC   G+ PYFETSAK+  N+  AF       L 
Sbjct: 123 NKIDIS---ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>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 =  128 bits (321), Expect = 4e-38
 Identities = 63/178 (35%), Positives = 104/178 (58%), Gaps = 7/178 (3%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K I++GD+GVGK+ L+ Q+   +F   +  TIG +F  + + +D K + LQIWDTAGQ
Sbjct: 3   LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E F+S+  ++YRGA   +LVYD+  ++TF  L +W E+  + +          +L+GNK 
Sbjct: 63  ESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN----MVIMLIGNKS 118

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDIY 189
           D +   SR   +++  E  A    + + ETSAK  CN++EAF+  A+   +   + ++
Sbjct: 119 DLE---SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGLF 173

>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 =  126 bits (317), Expect = 1e-37
 Identities = 54/167 (32%), Positives = 94/167 (56%), Gaps = 7/167 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K I++GD GVGK+ L++Q+   KF      TIG +F T+ +++  + + LQIWDTAGQ
Sbjct: 4   IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ 63

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+++  ++YRGA   ++VYD+  + T+  L +W  +         +     +L+GNK 
Sbjct: 64  ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLT----NPNTVIILIGNKA 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D +   ++     +  +  A    + + E SAK   N+++AFL  A+
Sbjct: 120 DLE---AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAK 163

>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 =  126 bits (316), Expect = 2e-37
 Identities = 58/172 (33%), Positives = 90/172 (52%), Gaps = 7/172 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L K +V+G++G GK+ L++Q++  KF      TIG +F +K + +  K V LQIWDTAGQ
Sbjct: 5   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ 64

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF+S+  ++YRGA   +LVYD+  ++T+ +L NW  +          +    +L GNK 
Sbjct: 65  ERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML----ASQNIVIILCGNK- 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
                 +            A    + + ETSA    N++EAF+  A   L  
Sbjct: 120 --KDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNK 169

>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 =  126 bits (316), Expect = 3e-37
 Identities = 64/187 (34%), Positives = 105/187 (56%), Gaps = 16/187 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL----------V 61
           L+K++ LGDSGVGKT+ + +Y  NKF+ ++  T+G DF  K +  + +           V
Sbjct: 5   LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 64

Query: 62  TLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEA 121
            LQ+WDTAGQERF+SL +AF+R A   +L++D+  Q++F +++NW  +    A     E 
Sbjct: 65  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYC---EN 121

Query: 122 CPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
              VL+GNK D      +    ++     A +  IPYFETSA    N+++A   + ++ +
Sbjct: 122 PDIVLIGNKADLP---DQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIM 178

Query: 182 KNEHKDI 188
           K   + +
Sbjct: 179 KRMEQCV 185

>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 =  125 bits (314), Expect = 5e-37
 Identities = 57/171 (33%), Positives = 95/171 (55%), Gaps = 7/171 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK++++G+SGVGK+SL+ ++  + F  +  ATIG DF  K + +D     L IWDTAGQE
Sbjct: 8   LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 67

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L  ++YRGA   +LVYDV  +   ++         +            +L+GNKID
Sbjct: 68  RFRTLTPSYYRGAQGVILVYDVTRR---DTFVKLDNWLNELETYCTRNDIVNMLVGNKID 124

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            +   +R V + + L++ A + ++ + E SAK    +  AF  + E  ++ 
Sbjct: 125 KE---NREVDRNEGLKF-ARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>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 =  124 bits (312), Expect = 9e-37
 Identities = 117/175 (66%), Positives = 139/175 (79%), Gaps = 3/175 (1%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           LLKVI+LGDSGVGKTSLMNQYV  KFS QYKATIGADF+TKE+ +DD+LVT+QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERFQSLG AFYRGADCCVLV+DV    TF++L +WR+EFL QA P + E  PFV+LGNKI
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
           D +   +R V  K+A  WC  + NIPYFETSAKE  N+++AF  +A  ALK E +
Sbjct: 122 DLE---NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETE 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 =  124 bits (310), Expect = 2e-36
 Identities = 105/174 (60%), Positives = 132/174 (75%), Gaps = 2/174 (1%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLV-TLQIWDTA 69
           N+LKVI+LGDSGVGKTSLM++YV +K+SQQYKATIGADF+TKE+ +D   V T+Q+WDTA
Sbjct: 1   NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTA 60

Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGN 129
           GQERFQSLG AFYRGADCCVLVYDV    +FE++++WR+EFL  A+    E  PFV+LGN
Sbjct: 61  GQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGN 120

Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
           KID +  S ++V +K A E     G+IP F TSAK   N+D AF  +A  AL+ 
Sbjct: 121 KIDAE-ESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>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 =  118 bits (295), Expect = 2e-34
 Identities = 57/165 (34%), Positives = 94/165 (56%), Gaps = 7/165 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++ LG+  VGKTSL+ +++Y+ F   Y+ATIG DF++K + ++D+ + LQ+WDTAGQER
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER 61

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F+SL  ++ R +   V+VYD+    +F+    W ++   +           +L+GNK D 
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD----VIIMLVGNKTDL 117

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
              + +     +  E  A   N+ + ETSAK   N+ + F  VA 
Sbjct: 118 ---ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA 159

>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 =  114 bits (286), Expect = 6e-33
 Identities = 53/167 (31%), Positives = 94/167 (56%), Gaps = 7/167 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L KVI++G  GVGK++L  Q++Y++F + Y+ T   D   K++ +D + V + I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E + ++   ++R  +  + V+ +   ++F +  ++RE+ L+  +    E  PF+L+GNK 
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKS 119

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           D +      V + K     A + N+ Y ETSAK   N+D+ F  +  
Sbjct: 120 DLEDKRQVSVEEAK---NRADQWNVNYVETSAKTRANVDKVFFDLMR 163

>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 =  115 bits (288), Expect = 6e-33
 Identities = 47/184 (25%), Positives = 75/184 (40%), Gaps = 15/184 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  NKF  +Y  T+  D     + +  +  TL ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +  L    Y   D  ++ + V    +FE+++      +    P      PF+L+G +ID
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPK----TPFLLVGTQID 118

Query: 133 TDGGSSRVVPQKK----------ALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
                S +    K          A +       + Y E SA     +   F      AL+
Sbjct: 119 LRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALE 178

Query: 183 NEHK 186
               
Sbjct: 179 PPEP 182

>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 =  113 bits (283), Expect = 2e-32
 Identities = 62/171 (36%), Positives = 99/171 (57%), Gaps = 7/171 (4%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
             KV++LG+  VGKTSL+ +Y  NKF+ ++  T+GA F+TK+L +  K V L IWDTAGQ
Sbjct: 3   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQ 62

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           ERF +LG  +YR ++  +LVYD+  + +F+ ++NW +E  K             ++GNKI
Sbjct: 63  ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKML----GNEICLCIVGNKI 118

Query: 132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
           D +          +  E  A      ++ TSAK++  I+E FL + +  ++
Sbjct: 119 DLE---KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>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 =  113 bits (282), Expect = 2e-32
 Identities = 59/171 (34%), Positives = 99/171 (57%), Gaps = 5/171 (2%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K+++LG++ VGK+S++ ++V N F++  + TIGA F+T+ + +++  V  +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF SL   +YR A   ++VYDV   ++F   ++W +E          +     L+GNKID
Sbjct: 64  RFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKEL----HEQASKDIIIALVGNKID 119

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALK 182
                      ++  E  A    + +FETSAK   N+++ FL +  +I LK
Sbjct: 120 MLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>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 =  112 bits (281), Expect = 3e-32
 Identities = 61/170 (35%), Positives = 102/170 (60%), Gaps = 7/170 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K+++LG+S VGK+SL+ ++V  +F +  ++TIGA F+T+ + +DD  V  +IWDTAGQER
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER 67

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + SL   +YRGA   ++VYD+  +++F   +NW +E  +QA P         L GNK   
Sbjct: 68  YHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN----IVIALSGNK--- 120

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
              +++     +  +  A   ++ + ETSAK   N++E F+ +A+   KN
Sbjct: 121 ADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>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 =  111 bits (279), Expect = 7e-32
 Identities = 54/165 (32%), Positives = 86/165 (52%), Gaps = 7/165 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV+VLG  GVGK++L  Q+V   F ++Y  TI  DF  KE+++D     L+I DTAG E+
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQ 63

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F S+   + +     +LVY +  Q++F+ ++  R++ ++       E  P +L+GNK+D 
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRY---EKVPVILVGNKVDL 120

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +   S            A     P+ ETSAK    +DE F  +  
Sbjct: 121 E---SEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVR 162

>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 =  110 bits (276), Expect = 2e-31
 Identities = 52/170 (30%), Positives = 87/170 (51%), Gaps = 8/170 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+G  GVGK++L  Q + N F  +Y  TI  D   K++ +D +   L I DTAGQE 
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEE 63

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           + ++   + R  +  + V+ +N  K+FE +  +RE+  +  D    +  P VL+GNK D 
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD---SDDVPMVLVGNKCDL 120

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
                    + +  +  A    IPY ETSAK    +++AF  +     ++
Sbjct: 121 A----ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  110 bits (275), Expect = 3e-31
 Identities = 43/180 (23%), Positives = 75/180 (41%), Gaps = 15/180 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++++GD   GKT L+     ++F + Y  T+  +    ++++D K V L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +  L    Y   D  ++ + ++   + E++       +K   P      P +L+GNK D
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPN----VPIILVGNKKD 117

Query: 133 TDGG----------SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
                             V  ++  +     G   Y E SAK    + E F      AL+
Sbjct: 118 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 177

>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 =  110 bits (274), Expect = 5e-31
 Identities = 44/180 (24%), Positives = 76/180 (42%), Gaps = 15/180 (8%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           +LK +V+GD  VGKT L+  Y  + F ++Y  T+  D     + +  K   L ++DTAGQ
Sbjct: 9   MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQ 67

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           E +  L    Y   D  ++ + V    +F++++      LK+  P      PF+L+G +I
Sbjct: 68  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPN----VPFLLIGTQI 123

Query: 132 D----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
           D           +    + +  ++  +     G   Y E SA     +   F       L
Sbjct: 124 DLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 183

>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 =  108 bits (271), Expect = 1e-30
 Identities = 45/179 (25%), Positives = 73/179 (40%), Gaps = 15/179 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K +V+GD  VGKT L+  Y  N F  +Y  T+  D  +  + +D K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +  L    Y   D  ++ + +    +FE+++      ++   P      P +L+G K+D
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPN----TPIILVGTKLD 120

Query: 133 ----------TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIAL 181
                             +   + L      G + Y E SA     +   F       L
Sbjct: 121 LRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

>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 =  108 bits (270), Expect = 2e-30
 Identities = 53/179 (29%), Positives = 93/179 (51%), Gaps = 9/179 (5%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M+ +   +++V+G  GVGK++L  Q++ + F   Y  TI  D  TK+  +DD+   L I
Sbjct: 1   SMQEK--YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDI 57

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            DTAGQE F ++   + R  +  +LV+ V  + +FE +  ++ + L+  D    +  P +
Sbjct: 58  LDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKD---RDEFPMI 114

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           L+GNK D D        +    +  A +  + Y E SAK   N+D+AF  +  +  K +
Sbjct: 115 LIGNKADLDHQRQVTQEEG---QQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKFQ 170

>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 =  106 bits (266), Expect = 5e-30
 Identities = 56/165 (33%), Positives = 89/165 (53%), Gaps = 6/165 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++VLG  GVGK++L  Q+V   F ++Y  TI  D   K++++D +   L+I DTAG E+
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTEQ 63

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + +      LVY +  Q TF  LQ+ RE+ L+  D    E  P +L+GNK D 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDL 120

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +    RVV +++         N  + E+SAK   N++E F  +  
Sbjct: 121 E--DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>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 =  106 bits (265), Expect = 7e-30
 Identities = 51/176 (28%), Positives = 83/176 (47%), Gaps = 7/176 (3%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
              K++V+G  GVGK++L  Q++ + F   Y      D  TK   +D     L I DTAG
Sbjct: 5   ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTAG 63

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           QE F ++   + R     +LV+ +N +++F  +     + L+  D    +  P VL+GNK
Sbjct: 64  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKD---RDDFPVVLVGNK 120

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
            D +   S+    +          ++ YFE SAK   N+DEAF  +     K + +
Sbjct: 121 ADLE---SQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQ 173

>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 =  106 bits (264), Expect = 1e-29
 Identities = 39/174 (22%), Positives = 73/174 (41%), Gaps = 8/174 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L++ VLGD+  GK+SL+++++   +         ++   KE+ +D +   + I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLE--KTESEQYKKEMLVDGQTHLVLIREEAGAP 63

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +     F   AD  + V+ +  + +F+++       L              L+G +  
Sbjct: 64  DAK-----FSGWADAVIFVFSLEDENSFQAVSRLHG-QLSSLRGEGRGGLALALVGTQDR 117

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK 186
               S RVV   +A   CA      Y+ET A    N+D  F  VA+  +    +
Sbjct: 118 ISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQ 171

>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 =  105 bits (263), Expect = 1e-29
 Identities = 60/170 (35%), Positives = 94/170 (55%), Gaps = 10/170 (5%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           + K+IV+GDS VGKT L  ++   +F  + +ATIG DF  + + +D + + +Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 72  ERFQSLGS-AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
           ERF+      +YR     V VYD+    +F SL  W EE  +          P +L+GNK
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLA---NDIPRILVGNK 118

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK---EDCNIDEAFLCVA 177
            D    S+  VP   A ++     ++P FETSAK   ++ +++  F+ +A
Sbjct: 119 CDLR--SAIQVPTDLAQKFAD-THSMPLFETSAKNPNDNDHVEAIFMTLA 165

>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 =  102 bits (253), Expect = 4e-28
 Identities = 61/166 (36%), Positives = 92/166 (55%), Gaps = 7/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LKV +LGD+GVGK+S+M ++V + F      TIGA F+TK +Q  ++L    IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF++L   +YRG+   ++VYD+  ++TF +L+NW  E  +   P         + GNK D
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPS----IVVAIAGNKCD 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                  +    K     A   +  + ETSAK   NI+E F+ ++ 
Sbjct: 121 LTDVREVMERDAK---DYADSIHAIFVETSAKNAININELFIEISR 163

>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 =  100 bits (250), Expect = 1e-27
 Identities = 58/170 (34%), Positives = 99/170 (58%), Gaps = 8/170 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K++V+G+  VGK+S++ +Y    F++ YK TIG DF+ +++Q++D+ V L +WDTAGQE
Sbjct: 3   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 62

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            F ++  A+YRGA  CVLV+    +++FE++ +WRE+ + +                   
Sbjct: 63  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQN-------K 115

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
            D      +  ++A E  A R  + ++ TS KED N+ E F  +AE  L+
Sbjct: 116 IDLLDDSCIKNEEA-EGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 164

>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 = 99.3 bits (246), Expect = 5e-27
 Identities = 55/170 (32%), Positives = 91/170 (53%), Gaps = 8/170 (4%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++V+GD GVGK++L  Q+    F   Y  TI  D   K  ++D++   L + DTAGQE 
Sbjct: 6   KLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQEE 64

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F ++   + R  D  ++VY V  + +FE +  + +  L+  D    E+ P +L+ NK+D 
Sbjct: 65  FSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD---RESFPMILVANKVDL 121

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKE-DCNIDEAFLCVAEIALK 182
                R V + +  +  A + NIPY ETSAK+   N+D+ F  +  +  +
Sbjct: 122 M--HLRKVTRDQG-KEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 168

>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 = 99.0 bits (245), Expect = 6e-27
 Identities = 23/166 (13%), Positives = 59/166 (35%), Gaps = 8/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           ++++++G    GKT+++ +    +       T           ++ K ++  +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQD 55

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +++     + V D N ++     +      L   +    +A   V    +  
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLA--EDELRDAVLLVFANKQDL 113

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
            +  ++  +  K  L       N     T A     + E    ++ 
Sbjct: 114 PNAMNAAEITDKLGLHS-LRHRNWYIQATCATSGDGLYEGLDWLSN 158

>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 = 99.0 bits (245), Expect = 9e-27
 Identities = 38/181 (20%), Positives = 78/181 (43%), Gaps = 16/181 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++V+GDS  GKT+L++ +  + F + Y  T+  +  T   ++D + + L +WDT+G  
Sbjct: 3   CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEIDTQRIELSLWDTSGSP 61

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            + ++    Y  +D  ++ +D++  +T +S+    +  +++  P        +L+G K D
Sbjct: 62  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN----TKMLLVGCKSD 117

Query: 133 TDGGSS----------RVVPQKKALEWCAYRGNIPYFETSAKEDCN-IDEAFLCVAEIAL 181
                S            V   +        G   Y E SA +  N + + F       +
Sbjct: 118 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 177

Query: 182 K 182
            
Sbjct: 178 N 178

>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 = 97.7 bits (242), Expect = 2e-26
 Identities = 48/173 (27%), Positives = 78/173 (45%), Gaps = 6/173 (3%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
           N  +V V G  GVGK+SL+ ++V   F + Y  T+   +       D  + TLQI DT G
Sbjct: 1   NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVI-SCDKSICTLQITDTTG 59

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
             +F ++           +LVY +  +++ E L+   E+  +    G+ E+ P +L+GNK
Sbjct: 60  SHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIK--GDVESIPIMLVGNK 117

Query: 131 IDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN 183
            D          Q    E  A      + ETSAK + N+ E F  +  +  + 
Sbjct: 118 CDES---PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 167

>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 = 95.5 bits (236), Expect = 1e-25
 Identities = 46/171 (26%), Positives = 90/171 (52%), Gaps = 10/171 (5%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++++GD G GKT+ + +++  +F ++Y AT+G +        +   +   +WDTAGQE+
Sbjct: 5   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEK 64

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
           F  L   +Y  A C ++++DV  + T++++ NW  + ++  +       P VL GNK+D 
Sbjct: 65  FGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN-----IPIVLCGNKVD- 118

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
                +    K        + N+ Y++ SAK + N ++ FL +A   + + 
Sbjct: 119 ----IKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP 165

>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 = 93.1 bits (230), Expect = 2e-24
 Identities = 31/172 (18%), Positives = 64/172 (37%), Gaps = 8/172 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L++++LG  G GKT+++ +    +       TIG +  T    +  K + L +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTK-PTIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +     +Y      + V D   +    +        L++ +    +    ++  NK D
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEEL---QDAALLVFANKQD 129

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
             G  S     K+         +     +SA +   I E    + ++  + +
Sbjct: 130 QPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ 181

>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 = 88.5 bits (218), Expect = 7e-23
 Identities = 41/171 (23%), Positives = 79/171 (46%), Gaps = 9/171 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K+ + G +GVGK++L+ +++  +F  +Y  T+ + +  +   +DD++V+++I DTAGQE
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQE 61

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
                     R  +  VLVYD+  +    S +          +  + +    +L+GNK D
Sbjct: 62  DTIQ-REGHMRWGEGFVLVYDITDR---GSFEEVLPLKNILDEIKKPKNVTLILVGNKAD 117

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE-DCNIDEAFLCVAEIALK 182
            D        + +     A      ++E SA   + NI E F  +     +
Sbjct: 118 LDHSRQVSTEEGE---KLATELACAFYECSACTGEGNITEIFYELCREVRR 165

>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 = 88.1 bits (217), Expect = 1e-22
 Identities = 28/166 (16%), Positives = 57/166 (34%), Gaps = 8/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+++ +    +       T+G +  T    +  K V   +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVTTI-PTVGFNVET----VTYKNVKFNVWDVGGQD 67

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + L   +Y G    + V D   +   +  +      +   +  +     F    NK D
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIF---ANKQD 124

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                     Q+K         N     + A     + E    +  
Sbjct: 125 LPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTS 170

>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 = 87.4 bits (215), Expect = 1e-22
 Identities = 28/166 (16%), Positives = 58/166 (34%), Gaps = 8/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           L++++LG    GKT+++ ++           TI          ++ +   L IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
             +S    ++   D  + V D   ++  +  Q   +  L +           ++  NK D
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERL---AGATLLIFANKQD 114

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
             G  S    Q+          +      SA    ++      + +
Sbjct: 115 LPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLD 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 = 86.7 bits (213), Expect = 3e-22
 Identities = 40/166 (24%), Positives = 72/166 (43%), Gaps = 7/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++ ++G    GKT+ +N     +F++    T+G +      ++    VT+++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR----KITKGNVTIKLWDIGGQP 58

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           RF+S+   + RG    V + D   Q+  E+ +N     L +      +  P ++LGNK D
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQL---QGIPVLVLGNKRD 115

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
             G        +K          I  +  S KE  NID     + +
Sbjct: 116 LPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQ 161

>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 = 85.4 bits (210), Expect = 1e-21
 Identities = 30/166 (18%), Positives = 58/166 (34%), Gaps = 8/166 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +++++LG    GKT+L+ Q      S     T G +  +    +  +   L +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKS----VQSQGFKLNVWDIGGQR 71

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + +    +++   D  + V D   +K FE       E L++         P ++  NK D
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEK---LSCVPVLIFANKQD 128

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               +      +                 SA     + +    V +
Sbjct: 129 LLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCK 174

>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 = 84.4 bits (207), Expect = 3e-21
 Identities = 30/172 (17%), Positives = 64/172 (37%), Gaps = 15/172 (8%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           K++ LG    GKT+L++    ++ +     T+   +     ++    +    +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLA-----TLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            + L   ++   +  V + D    + F+  +   +     A+  +    PFV+LGNKID 
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKD---VPFVILGNKIDA 113

Query: 134 DGGSSRV-------VPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
               S         +      +    +  +  F  S        EAF  +++
Sbjct: 114 PNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 165

>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 = 83.6 bits (205), Expect = 5e-21
 Identities = 47/170 (27%), Positives = 75/170 (44%), Gaps = 7/170 (4%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K+ +LG   VGK+SL  Q+V  +F   Y  TI  +  TK + ++ +   LQ+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIE-NTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
            +      +    +  +LVY V   K+FE ++    + L      +       L+GNK D
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIM---LVGNKKD 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
                     + K     A   N  + E+SAKE+    + F  +   A K
Sbjct: 121 LHMERVISYEEGK---ALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>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 = 83.2 bits (204), Expect = 9e-21
 Identities = 32/179 (17%), Positives = 62/179 (34%), Gaps = 10/179 (5%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
           +M R   +++++LG  G GKT+++ +    +       T           +  K +  Q+
Sbjct: 1   HMTRE--MRILILGLDGAGKTTILYRLQVGEVV-----TTIPTIGFNVETVTYKNLKFQV 53

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
           WD  G    +     +Y   D  + V D   +      ++     L++    E      V
Sbjct: 54  WDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE---EELRKAILV 110

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
           +  NK D +   +                    F+TSA +   +DEA   + E     +
Sbjct: 111 VFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSRQ 169

>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 = 81.3 bits (199), Expect = 4e-20
 Identities = 35/172 (20%), Positives = 62/172 (36%), Gaps = 6/172 (3%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYK-ATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +V+++G+ GVGK++L N +     S       +G D   + L +D +  T+ + D    +
Sbjct: 5   RVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENK 64

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
                                V       S +   E  ++     + E  P +L+GNK D
Sbjct: 65  GENEWLHDHCMQVGDA--YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD 122

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNE 184
                   V + +    CA   +  + ETSA    N+ E F  +        
Sbjct: 123 LVRCREVSVSEGR---ACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR 171

>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 = 81.0 bits (199), Expect = 2e-19
 Identities = 24/180 (13%), Positives = 44/180 (24%), Gaps = 17/180 (9%)

Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
           R   ++++LG    GK++++ Q            T G              V   ++D  
Sbjct: 4   RATHRLLLLGAGESGKSTIVKQMRILHVV----LTSGIFETK----FQVDKVNFHMFDVG 55

Query: 70  GQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWR-------EEFLKQADPGEHEAC 122
           GQ   +      +      + V   +         N           F    +       
Sbjct: 56  GQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTI 115

Query: 123 PFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALK 182
             +L  NK D      +V+  K  +E              A  +   D            
Sbjct: 116 SVILFLNKQDLLAE--KVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRD 173

>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 = 79.7 bits (195), Expect = 2e-19
 Identities = 24/173 (13%), Positives = 54/173 (31%), Gaps = 8/173 (4%)

Query: 6   NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQI 65
            +      KVI++G    GKT+++ Q+  N+              +   ++        +
Sbjct: 9   RLFNHQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSP-----TIGSNVEEIVINNTRFLM 63

Query: 66  WDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
           WD  GQE  +S  + +Y   +  ++V D   ++     +    + L   D  +      +
Sbjct: 64  WDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRK---AGLL 120

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
           +  NK D     +     +                  A     + +    +  
Sbjct: 121 IFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS 173

>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 = 78.4 bits (192), Expect = 1e-18
 Identities = 29/203 (14%), Positives = 56/203 (27%), Gaps = 38/203 (18%)

Query: 12  LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ 71
           L+K+++LG    GK++ + Q    +       T G      E++        ++ D  GQ
Sbjct: 2   LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYDFEIKNVPF----KMVDVGGQ 54

Query: 72  ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWR-------EEFLKQADPGEHEACPF 124
              +      +      + +   +                     F    +         
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 125 VLLGNKIDTDGGSSRVVPQKKAL-EWCAY-----------------------RGNIPYFE 160
           +L  NK D      +VV  K    E+                          +  + +  
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHF 174

Query: 161 TSAKEDCNIDEAFLCVAEIALKN 183
           T+A    NI   F  V +  L +
Sbjct: 175 TTAINTENIRLVFRDVKDTILHD 197

>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 = 78.1 bits (191), Expect = 1e-18
 Identities = 30/203 (14%), Positives = 56/203 (27%), Gaps = 40/203 (19%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           LK+++LG    GK++ + Q      S     T G      +LQ        ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYPFDLQSVIF----RMVDVGGQR 56

Query: 73  RFQSLGSAFYRGADCCVLVYDV-------NVQKTFESLQNWREEFLKQADPGEHEACPFV 125
             +      +      + +  +               ++  +  F         +    +
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRG-------------------------NIPYFE 160
           L  NK D      +++       +  Y G                          I    
Sbjct: 117 LFLNKKDLL--EEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHF 174

Query: 161 TSAKEDCNIDEAFLCVAEIALKN 183
           T A +  NI   F  V +  L+ 
Sbjct: 175 TCATDTENIRFVFAAVKDTILQL 197

>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 = 77.1 bits (188), Expect = 1e-18
 Identities = 42/174 (24%), Positives = 75/174 (43%), Gaps = 9/174 (5%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           KV++LG  GVGK++L   +   +   +           + + +D +  +L ++D   Q+ 
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVEDGPEA--EAAGHTYDRSIVVDGEEASLMVYDIWEQDG 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
            + L        D  V+VY V  + +F   +   E  ++     + +  P +L+GNK D 
Sbjct: 61  GRWLPGHCMAMGDAYVIVYSVTDKGSF---EKASELRVQLRRARQTDDVPIILVGNKSDL 117

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVA-EIALKNEHK 186
               SR V   +    CA   +  + ETSA    N+   F  V  +I L+ + K
Sbjct: 118 V--RSREVSVDEG-RACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 168

>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 = 75.1 bits (183), Expect = 2e-17
 Identities = 24/173 (13%), Positives = 48/173 (27%), Gaps = 3/173 (1%)

Query: 14  KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
            V+ +G    GKT L  + +  ++      +I       ++  +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 74  FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID- 132
              L   F   A   V V D    +            +         +   ++  NK D 
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 133 TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
               S++++ Q+   E    R        S  +  +   A L       +   
Sbjct: 121 AMAKSAKLIQQQLEKELNTLR-VTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQ 172

>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 = 74.6 bits (182), Expect = 2e-17
 Identities = 28/203 (13%), Positives = 59/203 (29%), Gaps = 43/203 (21%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +K+++LG    GK++++ Q      +       G      E     K +  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHEA-----GTG----IVETHFTFKDLHFKMFDVGGQR 53

Query: 73  RFQSLGSAFYRGADCCVLVYDV-------NVQKTFESLQNWREEFLKQADPGEHEACPFV 125
             +      + G    +    +          +    +    + F    +         +
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRG-------------------------NIPYFE 160
           L  NK D      ++      + +  Y G                          I    
Sbjct: 114 LFLNKKDLF--EEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHF 171

Query: 161 TSAKEDCNIDEAFLCVAEIALKN 183
           T A +  N+   F  V ++ +KN
Sbjct: 172 TCATDTKNVQFVFDAVTDVIIKN 194

>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 = 63.6 bits (153), Expect = 2e-13
 Identities = 28/178 (15%), Positives = 55/178 (30%), Gaps = 20/178 (11%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
            K++ LG    GKT+L++    ++  Q               ++    +T   +D  G  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVP-----TLHPTSEELTIAGMTFTTFDLGGHI 68

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKID 132
           + + +   +    +  V + D    +        +EE             P ++LGNKID
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLL---ESKEELDSLMTDETIANVPILILGNKID 125

Query: 133 TD------------GGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAE 178
                         G   +   +            +  F  S  +     E F  +A+
Sbjct: 126 RPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQ 183

>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 = 58.5 bits (140), Expect = 2e-11
 Identities = 25/199 (12%), Positives = 55/199 (27%), Gaps = 13/199 (6%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           +I+ G    GKTSL+     +      + T+ +         D   VTL  +    + R+
Sbjct: 6   IIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRY 61

Query: 75  QS---LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKI 131
           +    L +          +V      K   +   +  + L   +         ++  NK 
Sbjct: 62  KLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKS 121

Query: 132 DTDGG-SSRVVPQKKALEWCAYR----GNIPYFETSAKEDCNIDEAFLCVA-EIALKNEH 185
           +         +      E          ++   E    E+   +     +      K  +
Sbjct: 122 ELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQSTDGFKFAN 181

Query: 186 KDIYYQPQGISETVSEVEQ 204
            +        S    ++ Q
Sbjct: 182 LEASVVAFEGSINKRKISQ 200

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} 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: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 52.5 bits (124), Expect = 3e-09
 Identities = 23/173 (13%), Positives = 56/173 (32%), Gaps = 2/173 (1%)

Query: 9   RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKL--VTLQIW 66
              L ++ + G S VGK+S +N  +  K   +  +  G         ++D+L  V +  +
Sbjct: 20  EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGY 79

Query: 67  DTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
             A   + +                    V +  +       + ++  +  ++   P ++
Sbjct: 80  GFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIV 139

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
           +  K D           K   +             S++     DEA+  + ++
Sbjct: 140 IATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKM 192

>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 = 48.6 bits (114), Expect = 6e-08
 Identities = 23/166 (13%), Positives = 60/166 (36%), Gaps = 7/166 (4%)

Query: 11  NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAG 70
             ++V   G S  GK+S +N     K   +   T G   +    ++ D    + +     
Sbjct: 15  TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGY 74

Query: 71  QERFQSLGSAFYRGADC-----CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV 125
            E  + +   + R           L   V +      L++  ++ ++ A          +
Sbjct: 75  AEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLL 134

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
              +K+ +    +++   ++A+   A+ G++     S+ +   +D+
Sbjct: 135 TKADKLASGARKAQLNMVREAVL--AFNGDVQVETFSSLKKQGVDK 178

>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 = 47.1 bits (111), Expect = 4e-07
 Identities = 24/129 (18%), Positives = 41/129 (31%), Gaps = 7/129 (5%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKEL--QMDDKLVTLQIWDTAG 70
           L V V G++G GK+S +N        ++  A  G   VT E        +  +  WD  G
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPG 116

Query: 71  QERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNK 130
                     +          YD  +  +    +    +  K           F  +  K
Sbjct: 117 IGSTNFPPDTYL--EKMKFYEYDFFIIISATRFKKNDIDIAKAI---SMMKKEFYFVRTK 171

Query: 131 IDTDGGSSR 139
           +D+D  +  
Sbjct: 172 VDSDITNEA 180

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 43.5 bits (101), Expect = 3e-06
 Identities = 32/168 (19%), Positives = 55/168 (32%), Gaps = 7/168 (4%)

Query: 10  RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTA 69
            + +KV ++G   VGK++L N  +  + +       G      + ++          DTA
Sbjct: 6   TDAIKVAIVGRPNVGKSTLFNAILNKERA-LVSPIPGTTRDPVDDEVFIDGRKYVFVDTA 64

Query: 70  GQERFQSLGSAFYRGADCCVLVYDVN----VQKTFESLQNWREEFLKQADPGEHEACPFV 125
           G  R   +            +V  +     V    ++ Q    +  + A   E      V
Sbjct: 65  GLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASV 124

Query: 126 LLGNKID--TDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
           ++ NK D             K   E   +    P   TSA +  NID 
Sbjct: 125 VVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDR 172

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} 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: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 43.5 bits (101), Expect = 3e-06
 Identities = 26/178 (14%), Positives = 53/178 (29%), Gaps = 13/178 (7%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           +I  G S VGK++L+ +    K  +  +  +    +  E +    +         G  + 
Sbjct: 3   IIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKE 62

Query: 75  QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC------------ 122
                             +++V       +   E   +    GE                
Sbjct: 63  VQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDI 122

Query: 123 PFVLLGNKIDTDGGSSRVVPQ-KKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEI 179
           P ++  NK+D       V+    +  E      +  +   SAK   NI+     + E+
Sbjct: 123 PTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEV 180

>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 = 43.2 bits (100), Expect = 4e-06
 Identities = 23/162 (14%), Positives = 41/162 (25%), Gaps = 14/162 (8%)

Query: 13  LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQE 72
           +KV++ G    GK+SL+N     + +       G         +    + L I DTAG  
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHIDGMPLHIIDTAGLR 60

Query: 73  RFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADP---GEHEACPFVLLGN 129
                            +     V    +       +  +             P  ++ N
Sbjct: 61  EASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRN 120

Query: 130 KIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
           K D                  +          SA+    +D 
Sbjct: 121 KAD----------ITGETLGMSEVNGHALIRLSARTGEGVDV 152

>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 = 42.3 bits (98), Expect = 8e-06
 Identities = 27/165 (16%), Positives = 44/165 (26%), Gaps = 18/165 (10%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLV----TLQIWDTAG 70
           V ++G    GK+SL+        ++ +       F T    +    V       + D  G
Sbjct: 4   VGLVGYPNAGKSSLL-----AAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPG 58

Query: 71  Q----ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVL 126
                   + LG  F R      ++  V                   A        P ++
Sbjct: 59  IIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLV 118

Query: 127 LGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE 171
             NK+D            KAL     R  +     SA     +  
Sbjct: 119 ALNKVDLLEEE-----AVKALADALAREGLAVLPVSALTGAGLPA 158

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} 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: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 38.9 bits (89), Expect = 1e-04
 Identities = 26/171 (15%), Positives = 55/171 (32%), Gaps = 3/171 (1%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           + ++G   VGK++L+N+ +  K S   +           +  +     +   DT G    
Sbjct: 8   IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIY-VDTPGLHME 66

Query: 75  QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD 134
           +               + DV +         W  +     +       P +L  NK+D  
Sbjct: 67  EKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVILAVNKVDNV 126

Query: 135 GGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
              + ++P  +     +    +     SA+   N+D     V +   +  H
Sbjct: 127 QEKADLLPHLQ--FLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEATH 175

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

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]

 Score = 38.6 bits (88), Expect = 2e-04
 Identities = 22/171 (12%), Positives = 45/171 (26%), Gaps = 4/171 (2%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           V ++G   VGK++L+N  +  K +                 + +    +   DT G  + 
Sbjct: 8   VAIVGKPNVGKSTLLNNLLGVKVAPISP-RPQTTRKRLRGILTEGRRQIVFVDTPGLHKP 66

Query: 75  QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD 134
                 F        L     V    +       E    A   +       +L      D
Sbjct: 67  MDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLD 126

Query: 135 GGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
                  P++    +            SA ++  + E    +  +  +   
Sbjct: 127 AAKY---PEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMPEGPF 174

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} 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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 37.6 bits (86), Expect = 4e-04
 Identities = 33/188 (17%), Positives = 61/188 (32%), Gaps = 16/188 (8%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           V ++G   VGK++L++     K     Y  T     +      D +     + D  G   
Sbjct: 4   VGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFV--MADLPGLIE 61

Query: 74  FQS----LGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEAC----PFV 125
                  LG  F R  +   ++  V      E    + +      +  E+       P +
Sbjct: 62  GAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQI 121

Query: 126 LLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH 185
           ++ NK+D    +  +   K+ L       + P F  SA     + E    VA        
Sbjct: 122 IVANKMDMPEAAENLEAFKEKLTD-----DYPVFPISAVTREGLRELLFEVANQLENTPE 176

Query: 186 KDIYYQPQ 193
             +Y + +
Sbjct: 177 FPLYDEEE 184

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 36.3 bits (82), Expect = 0.001
 Identities = 27/175 (15%), Positives = 63/175 (36%), Gaps = 8/175 (4%)

Query: 15  VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF 74
           V+++G   VGK++L N+ V  K +   +   G      +  ++    T ++ DT G    
Sbjct: 3   VLIVGRPNVGKSTLFNKLVKKKKA-IVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDN 61

Query: 75  QSLGSAFYRGADCCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT 133
                +         ++ + ++     +  +   +E    AD         +L+ NK + 
Sbjct: 62  PQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAEN 121

Query: 134 DGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHKDI 188
                    +++        G       SA+ + N+D     + +  L+ +  D+
Sbjct: 122 LR-----EFEREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIK-KLEEKGLDL 170

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]} Length = 158

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]

 Score = 34.3 bits (78), Expect = 0.004
 Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 1/78 (1%)

Query: 15  VIVL-GDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER 73
           ++ L GD G GKT+L    +     Q    +     V +       +    ++  A  E 
Sbjct: 35  MVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVEEYNIAGKMIYHFDLYRLADPEE 94

Query: 74  FQSLGSAFYRGADCCVLV 91
            + +G   Y   D   L+
Sbjct: 95  LEFMGIRDYFNTDSICLI 112

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	210
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {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
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.98
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.98
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
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.93
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.93
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.92
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.92
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.91
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.91
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.91
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.91
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.9
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.89
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.89
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.89
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.88
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.88
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.87
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.86
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.86
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.84
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.83
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.82
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.77
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.77
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.77
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.76
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.75
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.73
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.73
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.63
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.61
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.56
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.54
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.44
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.4
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.4
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.29
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.15
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.09
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.03
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.65
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.48
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.37
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.36
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.35
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.34
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.34
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.26
d1okkd2	207	GTPase domain of the signal recognition particle r	98.25
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.24
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.23
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.23
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.95
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.92
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.87
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.85
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.8
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.77
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.73
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.7
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.68
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.68
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.68
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.67
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.65
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.63
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.61
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.59
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.57
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.56
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.54
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.51
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.46
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.43
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.42
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.41
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.36
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.35
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.33
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.32
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.32
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.3
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.29
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.27
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.27
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.25
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.24
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.22
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.21
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.19
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.19
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.19
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.18
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.17
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.17
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.16
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.16
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.16
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.15
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.15
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.12
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.12
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.11
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.11
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.1
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.08
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.07
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.04
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.02
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.02
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.0
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.0
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.0
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.0
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.99
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.98
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.97
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.96
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.92
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.91
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.89
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.86
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.85
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.84
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.83
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.81
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.77
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.76
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.73
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.72
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.72
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.7
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.68
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.63
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.63
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.6
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.58
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.57
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.52
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.51
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.38
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.32
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.3
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.19
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.18
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.13
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.1
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.09
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.04
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.03
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.03
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.93
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.9
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.89
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.83
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.8
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.78
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.71
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.59
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.58
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.58
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.52
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.44
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.43
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.39
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.38
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.35
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.34
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	95.31
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.29
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.27
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.25
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.25
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.25
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.24
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.21
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.2
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.12
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.05
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.01
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.78
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.56
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.52
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.52
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.45
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.39
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.18
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.08
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.83
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.7
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	93.63
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.35
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	93.2
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.63
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.95
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.5
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	90.9
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	90.47
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	90.23
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	89.87
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	89.86
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	88.79
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	88.78
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	88.73
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	88.63
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	88.17
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	87.6
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	85.55
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.32
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	84.93
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.71
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	84.47
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	83.74
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.44
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	83.41
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	82.76
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	82.23
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	81.79
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	81.55
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	80.78
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	80.42

>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=6.7e-38  Score=217.41  Aligned_cols=172  Identities=33%  Similarity=0.509  Sum_probs=152.0

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      +++...+||+|+|++|||||||+++|+.+.+...+.++.. +.....+.+++..+.+.+||++|++++...+..+++.+|
T Consensus         1 p~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~   79 (173)
T d2fn4a1           1 PPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGH   79 (173)
T ss_dssp             CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCS
T ss_pred             CCCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccce
Confidence            3567889999999999999999999999999887777654 555677888999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++++|||++++.+++.+..|+..+.+....   .++|+++|+||+|+.+.  +....+++..+++..+ +++++|||++|
T Consensus        80 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~p~ilvgnK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sak~g  153 (173)
T d2fn4a1          80 GFLLVFAINDRQSFNEVGKLFTQILRVKDR---DDFPVVLVGNKADLESQ--RQVPRSEASAFGASHH-VAYFEASAKLR  153 (173)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHTS---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTT
T ss_pred             eeeeecccccccccchhhhhhHHHHHHhcc---CCCceEEEEEeechhhc--cccchhhhhHHHHhcC-CEEEEEeCCCC
Confidence            999999999999999999999988765422   27899999999998754  5677889999999888 89999999999


Q ss_pred             CChHHHHHHHHHHHHhccc
Q 028305          167 CNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~~  185 (210)
                      .||+++|+.|++.+.++++
T Consensus       154 ~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         154 LNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             BSHHHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHHhc
Confidence            9999999999999977654

>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=4.3e-38  Score=216.62  Aligned_cols=163  Identities=37%  Similarity=0.711  Sum_probs=150.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+|+|++|+|||||+++|..+.+...+.++.+.+........++..+.+.+||++|++++......+++.+|++++|
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            48999999999999999999999999888889988888888889999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+.+...     ++|+++|+||+|+.+.  +.+..++++.+++..+ .+++++||++|.|+++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~-----~~~iilVgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~g~~v~e  153 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVG-----DIPTALVQNKIDLLDD--SCIKNEEAEGLAKRLK-LRFYRTSVKEDLNVSE  153 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHC-----SCCEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CEEEECBTTTTBSSHH
T ss_pred             EeccchhhhhhcccccccccccCC-----CceEEEeeccCCcccc--eeeeehhhHHHHHHcC-CEEEEeccCCCcCHHH
Confidence            999999999999999999887655     7899999999999764  6778888999999988 7999999999999999


Q ss_pred             HHHHHHHHHHh
Q 028305          172 AFLCVAEIALK  182 (210)
Q Consensus       172 ~~~~l~~~~~~  182 (210)
                      +|+.|++.+++
T Consensus       154 ~f~~l~~~~lq  164 (164)
T d1z2aa1         154 VFKYLAEKHLQ  164 (164)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhC
Confidence            99999998864

>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=1.4e-37  Score=215.47  Aligned_cols=168  Identities=39%  Similarity=0.660  Sum_probs=153.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+|+|++|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||+|++.+...+..+++.+++++
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            45799999999999999999999999998888888988999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.++..+..|+..+.+....    .+|+++|+||+|+...  +.+..+++..+++..+ .++++|||++|.||
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~~~----~~~~ilvgnK~D~~~~--~~v~~~~~~~~~~~~~-~~~~~~SAktg~gV  155 (171)
T d2ew1a1          83 LTYDITCEESFRCLPEWLREIEQYASN----KVITVLVGNKIDLAER--REVSQQRAEEFSEAQD-MYYLETSAKESDNV  155 (171)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CSSCHHHHHHHHHHHT-CCEEECCTTTCTTH
T ss_pred             Eeeecccchhhhhhhhhhhhhcccccc----cccEEEEEeecccccc--cchhhhHHHHHHHhCC-CEEEEEccCCCCCH
Confidence            999999999999999999988776543    6899999999998654  5677788999999888 79999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q 028305          170 DEAFLCVAEIALKNE  184 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~  184 (210)
                      +++|..|++++++..
T Consensus       156 ~e~f~~l~~~l~~~~  170 (171)
T d2ew1a1         156 EKLFLDLACRLISEA  170 (171)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999987653

>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=1.6e-37  Score=214.68  Aligned_cols=166  Identities=33%  Similarity=0.670  Sum_probs=151.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+|+|++|+|||||+++|.++.+...+.++.+.+.....+...+..+.+.+|||||++++..++..+++.+|++|
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            45799999999999999999999999998888888888888889999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||+++++++..+..|+..+......    ..|+++|+||+|+.+.  +.+..++++.+++..+ .+++++||++|.|+
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iivv~nK~D~~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~g~gv  155 (169)
T d3raba_          83 LMYDITNEESFNAVQDWSTQIKTYSWD----NAQVLLVGNKCDMEDE--RVVSSERGRQLADHLG-FEFFEASAKDNINV  155 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCS----CCEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTTBSH
T ss_pred             EEEECccchhhhhhhhhhhhhhcccCC----cceEEEEEeecccccc--cccchhhhHHHHHHcC-CEEEEecCCCCcCH
Confidence            999999999999999998877665543    7799999999998754  5677888999999988 89999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 028305          170 DEAFLCVAEIALK  182 (210)
Q Consensus       170 ~~~~~~l~~~~~~  182 (210)
                      +++|++|++.+.+
T Consensus       156 ~e~f~~l~~~i~e  168 (169)
T d3raba_         156 KQTFERLVDVICE  168 (169)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998865

>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=1e-37  Score=215.30  Aligned_cols=165  Identities=39%  Similarity=0.661  Sum_probs=145.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..|||+|+|++|+|||||+++|+.+.+...+.++.+.+........++..+.+.+||++|+.++..++..+++++|++++
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            57999999999999999999999999999999999989989999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++++|+.+..|+..+......    ..|+++|+||+|+...  +.+..++++.+++..+ .+++++||++|.||+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~----~~~~ilvgnK~Dl~~~--~~v~~~e~~~~a~~~~-~~~~e~Sak~~~~v~  154 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGN----EICLCIVGNKIDLEKE--RHVSIQEAESYAESVG-AKHYHTSAKQNKGIE  154 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGG----GSEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEEEBTTTTBSHH
T ss_pred             EEeCCchhHHHhhhhhhhhccccccc----ccceeeeccccccccc--cccchHHHHHHHHHcC-CeEEEEecCCCcCHH
Confidence            99999999999999999887665443    6799999999999765  6788899999999988 899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|.+|++++++
T Consensus       155 e~F~~l~~~i~~  166 (167)
T d1z08a1         155 ELFLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhh
Confidence            999999999875

>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=2.3e-37  Score=213.69  Aligned_cols=166  Identities=22%  Similarity=0.296  Sum_probs=132.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .|||+|+|++|+|||||+++|.+..+... .++. ...+...+.+++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAA-GHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCCc-CCee-eeeecceeeccccccceeeeecccccccceecccchhhhhhhcee
Confidence            38999999999999999999998776432 2333 344456778899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||++++.+++.+..|+..+......   .++|+++|+||+|+.+.  +++...++..+++..+ ++++++||++|.|+++
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~---~~~piilvgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~~~~v~~  152 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQT---DDVPIILVGNKSDLVRS--REVSVDEGRACAVVFD-CKFIETSAALHHNVQA  152 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC-----CCCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-SEEEECBTTTTBSHHH
T ss_pred             ccccccccccccccccchhhccccc---ccceEEEeecccchhhh--cchhHHHHHHHHHhcC-CEEEEEeCCCCcCHHH
Confidence            9999999999999999998776432   26899999999999764  6678889999999998 8999999999999999


Q ss_pred             HHHHHHHHHHhccc
Q 028305          172 AFLCVAEIALKNEH  185 (210)
Q Consensus       172 ~~~~l~~~~~~~~~  185 (210)
                      +|+.|++.+...+.
T Consensus       153 ~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         153 LFEGVVRQIRLRRD  166 (168)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999998876644

>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=1e-36  Score=210.62  Aligned_cols=167  Identities=32%  Similarity=0.546  Sum_probs=148.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      -++|||+++|++|+|||||+++++++.+...+.++.+..+ ......++..+.+.+||++|++.+......+++.+|+++
T Consensus         2 ~pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~l   80 (169)
T d1x1ra1           2 LPTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFL   80 (169)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEE
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEE
Confidence            3679999999999999999999999998888888776544 566778999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC-C
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC-N  168 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~  168 (210)
                      +|||++++.+|..+..|+..+.+....   .++|+++|+||+|+...  +.+..+++..+++..+ ++|+++||+++. |
T Consensus        81 lv~d~~d~~Sf~~~~~~~~~i~~~~~~---~~~p~ilvgnK~Dl~~~--~~v~~e~~~~~~~~~~-~~~~e~Sak~~~~n  154 (169)
T d1x1ra1          81 IVYSVTDKASFEHVDRFHQLILRVKDR---ESFPMILVANKVDLMHL--RKVTRDQGKEMATKYN-IPYIETSAKDPPLN  154 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTS---SCCCEEEEEECTTCSTT--CCSCHHHHHHHHHHHT-CCEEEEBCSSSCBS
T ss_pred             EecccccchhhhccchhhHHHHhhccc---cCccEEEEecccchhhh--ceeehhhHHHHHHHcC-CEEEEEcCCCCCcC
Confidence            999999999999999999998776432   27899999999999765  6788899999999998 799999999886 9


Q ss_pred             hHHHHHHHHHHHHhc
Q 028305          169 IDEAFLCVAEIALKN  183 (210)
Q Consensus       169 v~~~~~~l~~~~~~~  183 (210)
                      |+++|..|++.+.+.
T Consensus       155 V~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         155 VDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999998763

>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=4e-37  Score=212.14  Aligned_cols=165  Identities=35%  Similarity=0.662  Sum_probs=150.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..|||+|+|++|+|||||+++|+++.+...+.++.+.+.......+++..+.+.+||++|++.+...+..+++.+|+++
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            35799999999999999999999999999888888888888899999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||+++.+++..+..|+..+.+....    ..|+++++||+|+...  .....++++.+++..+ .+++++||++|.||
T Consensus        82 lv~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilvgnK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Saktg~~v  154 (166)
T d1z0fa1          82 MVYDITRRSTYNHLSSWLTDARNLTNP----NTVIILIGNKADLEAQ--RDVTYEEAKQFAEENG-LLFLEASAKTGENV  154 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEeccCchHHHHHHHHHHHHHHhhccc----cceEEEEcccccchhh--cccHHHHHHHHHHHcC-CEEEEEeCCCCCCH
Confidence            999999999999999999988776554    7799999999998654  5667788999999888 79999999999999


Q ss_pred             HHHHHHHHHHHH
Q 028305          170 DEAFLCVAEIAL  181 (210)
Q Consensus       170 ~~~~~~l~~~~~  181 (210)
                      +++|..|++.++
T Consensus       155 ~e~f~~i~~~i~  166 (166)
T d1z0fa1         155 EDAFLEAAKKIY  166 (166)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999998863

>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=4.9e-37  Score=215.21  Aligned_cols=169  Identities=25%  Similarity=0.386  Sum_probs=147.3

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ++...+||+|+|++|+|||||+++|+.+.+...+.++.+. ........++..+.+.+||++|++.+...+..+++.+|+
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~-~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~   83 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   83 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCC-CEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceee-eeeEEEeeCCceEEeecccccccchhhhhhhhcccccce
Confidence            5778999999999999999999999999998888888764 446667788888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCc
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      +++|||++++++|+++..|+....+....    ++|+++|+||+|+.+.          ..+.+..+++.++++..+.+.
T Consensus        84 ~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~----~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~  159 (185)
T d2atxa1          84 FLICFSVVNPASFQNVKEEWVPELKEYAP----NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACC  159 (185)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHST----TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSC
T ss_pred             eeeccccchHHHHHHHHHHHHHHHHhcCC----CCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCE
Confidence            99999999999999877665555554333    7899999999998652          235678889999999999889


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHH
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      |++|||++|.||+++|+.++++++
T Consensus       160 ~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         160 YVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHc
Confidence            999999999999999999999875

>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=1.4e-36  Score=213.97  Aligned_cols=168  Identities=26%  Similarity=0.409  Sum_probs=145.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+|+|++|+|||||+++|+.+.+...+.++.+.. .......++..+.+.+||++|++++...+..+++.+|++++
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   80 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV   80 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeCCceeeeeccccccchhhhhhhhhcccccceeec
Confidence            36899999999999999999999999988888888744 45667788889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCcEEE
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      |||+++++||+++..|+.........    ++|+++|+||+|+.+.          ..+.+..+++..+++..+...|++
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~~~----~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  156 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHHCP----KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVE  156 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCT----TCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEE
T ss_pred             ccccchHHHHHHHHHHHHHHHhhcCC----CCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEE
Confidence            99999999999998766655554333    7899999999998543          224578889999999987789999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHhc
Q 028305          161 TSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +||++|.||+++|+.+++.+++.
T Consensus       157 ~SAk~~~~V~e~f~~l~~~~~~~  179 (191)
T d2ngra_         157 CSALTQKGLKNVFDEAILAALEP  179 (191)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHTSC
T ss_pred             EeCCCCcCHHHHHHHHHHHHhcC
Confidence            99999999999999999888654

>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=6.5e-37  Score=211.31  Aligned_cols=165  Identities=28%  Similarity=0.410  Sum_probs=148.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      .+.+||+|+|++|+|||||+++|+++.+...+.++.+.++ ...+.+++..+.+.+||++|.+.+..+...+++.+|+++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            4568999999999999999999999999888888887765 567788999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||+++++++..+..|+..+.+....   .++|+++|+||+|+...  +.+..+++..+++..+ ++|+++||++|.|+
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilvgnK~Dl~~~--r~v~~~~~~~~a~~~~-~~~~e~Sak~~~~v  154 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIKVIHGKLLDMVGK---VQIPIMLVGNKKDLHME--RVISYEEGKALAESWN-AAFLESSAKENQTA  154 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCS---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECCTTCHHHH
T ss_pred             hhcccchhhhhhhhhhhhhhhhhcccc---cccceeeeccccccccc--cchhHHHHHHHHHHcC-CEEEEEecCCCCCH
Confidence            999999999999999999988776432   27899999999999754  6788899999999998 89999999999999


Q ss_pred             HHHHHHHHHHHH
Q 028305          170 DEAFLCVAEIAL  181 (210)
Q Consensus       170 ~~~~~~l~~~~~  181 (210)
                      +++|+.|++.+.
T Consensus       155 ~~~f~~li~~~~  166 (167)
T d1xtqa1         155 VDVFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999998875

>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=2.4e-36  Score=209.78  Aligned_cols=171  Identities=52%  Similarity=0.936  Sum_probs=153.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +.+.|||+|+|++|||||||+++|+.+.+...+.++.+..........++..+.+.+||++|+.........++..++++
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   82 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   82 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceE
Confidence            46789999999999999999999999999988888888888888888999999999999999999998999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      +++||.+++.+++.+..|+..+.+........++|+++|+||+|+.+   +.+..++++.+++..+..+|+++||++|.|
T Consensus        83 i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~---~~v~~~~~~~~~~~~~~~~~~e~Sak~~~g  159 (174)
T d1wmsa_          83 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE---RQVSTEEAQAWCRDNGDYPYFETSAKDATN  159 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS---CSSCHHHHHHHHHHTTCCCEEECCTTTCTT
T ss_pred             EEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh---ccCcHHHHHHHHHHcCCCeEEEEcCCCCcC
Confidence            99999999999999999999988876666666899999999999964   678888999999988778999999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 028305          169 IDEAFLCVAEIALK  182 (210)
Q Consensus       169 v~~~~~~l~~~~~~  182 (210)
                      |+++|++|+++++.
T Consensus       160 I~e~f~~l~~~il~  173 (174)
T d1wmsa_         160 VAAAFEEAVRRVLA  173 (174)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999999875

>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=5.5e-37  Score=211.76  Aligned_cols=165  Identities=31%  Similarity=0.578  Sum_probs=145.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+|+|++|+|||||+++|+.+.+...+.++.+..+ ...+.+++..+.+.+||++|++++..+...+++.+|++++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            578999999999999999999999999888888887665 4567789999999999999999999889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+.+....   .++|+++|+||+|+.+.  +.+..++++.+++..+ ++++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piiivgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~g~gv~  155 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKED---ENVPFLLVGNKSDLEDK--RQVSVEEAKNRADQWN-VNYVETSAKTRANVD  155 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCC---TTSCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-CEEEECCTTTCTTHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCC---CCCcEEEEecccccccc--ccccHHHHHHHHHHcC-CeEEEEcCCCCcCHH
Confidence            99999999999999999998776432   27899999999998654  6778899999999998 899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|++|++.+.+
T Consensus       156 e~f~~l~~~i~~  167 (168)
T d1u8za_         156 KVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHC
Confidence            999999998754

>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=9.5e-37  Score=211.82  Aligned_cols=170  Identities=37%  Similarity=0.615  Sum_probs=154.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+|+|++|||||||+++|+.+.+...+.++.+.......+..++....+.+||++|++++..++..+++.+|+++
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            45799999999999999999999999998888888888888888888999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||.++++++..+..|+..+......    ++|+++|+||+|+...  .+...+....+++..+ ++++++||++|.|+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~piivv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~e~Sak~~~gi  155 (174)
T d2bmea1          83 LVYDITSRETYNALTNWLTDARMLASQ----NIVIILCGNKKDLDAD--REVTFLEASRFAQENE-LMFLETSALTGENV  155 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEEecccchhHHHHhhhhcccccccCC----ceEEEEEEecccccch--hchhhhHHHHHHHhCC-CEEEEeeCCCCcCH
Confidence            999999999999999999998877654    7899999999998654  5667778888888887 89999999999999


Q ss_pred             HHHHHHHHHHHHhcccc
Q 028305          170 DEAFLCVAEIALKNEHK  186 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~  186 (210)
                      +++|.++++++.+...+
T Consensus       156 ~e~f~~l~~~i~~~~~~  172 (174)
T d2bmea1         156 EEAFVQCARKILNKIES  172 (174)
T ss_dssp             HHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            99999999999877554

>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=2e-36  Score=210.71  Aligned_cols=166  Identities=26%  Similarity=0.443  Sum_probs=145.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      ..||+|+|++|+|||||+++|+.+.+...+.++.+ +........++..+.+.+||++|++.+...+..+++.+|++|+|
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 44456677889999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC----------CcccchHHHHHHHHHcCCCcEEEe
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS----------SRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ||++++++|+.+..|+........+    ++|+++|+||+|+.+..          .+.+..+++..+++..+..+|++|
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~----~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~  156 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCP----NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMEC  156 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHST----TSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCC----CCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEe
Confidence            9999999999988776666554433    78999999999996531          245678889999999998899999


Q ss_pred             cCCCCCChHHHHHHHHHHHHh
Q 028305          162 SAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       162 Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ||++|.||+++|+.+++++++
T Consensus       157 SAkt~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         157 SAKTKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHC
T ss_pred             cCCCCcCHHHHHHHHHHHHhC
Confidence            999999999999999999874

>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=211.22  Aligned_cols=162  Identities=35%  Similarity=0.630  Sum_probs=149.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      |||+|+|++|||||||+++|+++.+...+.++.+..........++..+.+.+||++|++.+...+..+++.+|++++||
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            69999999999999999999999999888999888888888888899999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      |++++.++..+..|+..+......    ++|+++|+||+|+.+.  +....+++..+++..+ ..++++||++|.||+++
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~----~~~iilvgnK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~SAk~g~~v~e~  153 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGS----DVIIMLVGNKTDLADK--RQVSIEEGERKAKELN-VMFIETSAKAGYNVKQL  153 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTT----SSEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCC----CceEEEEecccchhhh--hhhhHHHHHHHHHHcC-CEEEEecCCCCcCHHHH
Confidence            999999999999999998876654    7899999999999754  5667789999999988 89999999999999999


Q ss_pred             HHHHHHHHH
Q 028305          173 FLCVAEIAL  181 (210)
Q Consensus       173 ~~~l~~~~~  181 (210)
                      |++|++++.
T Consensus       154 f~~i~~~l~  162 (164)
T d1yzqa1         154 FRRVAAALP  162 (164)
T ss_dssp             HHHHHHHSC
T ss_pred             HHHHHHhhC
Confidence            999998764

>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=1.3e-37  Score=215.28  Aligned_cols=165  Identities=27%  Similarity=0.634  Sum_probs=142.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      -.|||+|+|++|+|||||+++|+.+.+...+.++.+.++.......++..+.+.+||++|+..+..++..+++.+|++++
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhh
Confidence            46899999999999999999999999998889999889888888899999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++++|+.+..|+..+.+...     ++|+++|+||+|+....    ..++...++...+ ++|+++||++|.|++
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~-----~~piilvgnK~Dl~~~~----~~~~~~~~~~~~~-~~~~e~Sak~~~~v~  151 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRVCE-----NIPIVLCGNKVDIKDRK----VKAKSIVFHRKKN-LQYYDISAKSNYNFE  151 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHHHC-----SCCEEEEEECCCCSCSC----CTTTSHHHHSSCS-SEEEEEBTTTTBTTT
T ss_pred             ccccccccccchhHHHHHHHhhccC-----CCceeeecchhhhhhhh----hhhHHHHHHHHcC-CEEEEEeCCCCCCHH
Confidence            9999999999999999998887654     78999999999997542    2234456666666 899999999999999


Q ss_pred             HHHHHHHHHHHhccc
Q 028305          171 EAFLCVAEIALKNEH  185 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~  185 (210)
                      ++|.+|++.++....
T Consensus       152 e~f~~l~~~l~~~~~  166 (170)
T d1i2ma_         152 KPFLWLARKLIGDPN  166 (170)
T ss_dssp             HHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHHccCCC
Confidence            999999999986544

>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=2.1e-36  Score=210.17  Aligned_cols=170  Identities=38%  Similarity=0.676  Sum_probs=149.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+|+|++|||||||+++|.++.+...+.++.+.+.....+.+++..+.+.+||++|++.+...+..+++.+|++|
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            45799999999999999999999999998888888888888888899999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||.+++.++..+..|+..+..+...    ++|+++|+||+|+.+.  +....+....+....+ .+++++||++|.|+
T Consensus        82 ~v~d~~~~~S~~~~~~~~~~i~~~~~~----~~piilvgnK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~g~~i  154 (175)
T d2f9la1          82 LVYDIAKHLTYENVERWLKELRDHADS----NIVIMLVGNKSDLRHL--RAVPTDEARAFAEKNN-LSFIETSALDSTNV  154 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEEECCCcccchhHHHHHHHHHHhcCC----CCcEEEEEeeeccccc--ccchHHHHHHhhcccC-ceEEEEecCCCcCH
Confidence            999999999999999999999887654    7899999999999754  4455566677777666 89999999999999


Q ss_pred             HHHHHHHHHHHHhcccc
Q 028305          170 DEAFLCVAEIALKNEHK  186 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~  186 (210)
                      +++|+++++.+.+...+
T Consensus       155 ~e~f~~l~~~i~~~~~~  171 (175)
T d2f9la1         155 EEAFKNILTEIYRIVSQ  171 (175)
T ss_dssp             HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhhh
Confidence            99999999998876554

>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=1.3e-36  Score=210.89  Aligned_cols=168  Identities=37%  Similarity=0.678  Sum_probs=148.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+|+|++|||||||+++|+++.+...+.++.+...........+..+.+.+||++|++.+...+..+++.+|++|+
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            46899999999999999999999999988888888888888888888889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+.+....    ++|+++|+||+|+...  +....+++..+++..+ .+++++||++|.||+
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~----~~piilv~nK~D~~~~--~~~~~~~~~~~a~~~~-~~~~e~Sa~tg~~V~  154 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSS----NMVIMLIGNKSDLESR--RDVKREEGEAFAREHG-LIFMETSAKTACNVE  154 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEEECTTTCTTHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCC----CCeEEEEecCCchhhh--hhhHHHHHHHHHHHcC-CEEEEecCCCCCCHH
Confidence            99999999999999999988776544    7899999999998654  5667788999999888 899999999999999


Q ss_pred             HHHHHHHHHHHhccc
Q 028305          171 EAFLCVAEIALKNEH  185 (210)
Q Consensus       171 ~~~~~l~~~~~~~~~  185 (210)
                      ++|.+|++.+++..+
T Consensus       155 e~f~~i~~~i~~~~~  169 (173)
T d2a5ja1         155 EAFINTAKEIYRKIQ  169 (173)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987654

>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=2e-36  Score=208.84  Aligned_cols=163  Identities=38%  Similarity=0.665  Sum_probs=150.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+|+|++|||||||+++|+.+.+...+.++.+..........++....+.+||++|++.+..+...+++.+|++|+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            57899999999999999999999999999999999888888888899999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++++++.+..|+..+......    +.|+++|+||+|+.+.  +.+..++++.+++..+ .+|+++||++|.||+
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilvgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~SAk~~~nV~  155 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPP----SIVVAIAGNKCDLTDV--REVMERDAKDYADSIH-AIFVETSAKNAININ  155 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCT----TSEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CEEEECBTTTTBSHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCC----cceEEEecccchhccc--cchhHHHHHHHHHHcC-CEEEEEecCCCCCHH
Confidence            99999999999999999888776654    7899999999999654  6788889999999988 899999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          171 EAFLCVAEIA  180 (210)
Q Consensus       171 ~~~~~l~~~~  180 (210)
                      ++|.+|++++
T Consensus       156 e~f~~l~~~i  165 (167)
T d1z0ja1         156 ELFIEISRRI  165 (167)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999999876

>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=3e-36  Score=212.68  Aligned_cols=173  Identities=37%  Similarity=0.660  Sum_probs=155.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .+..+||+|+|++|||||||+++|+.+.+...+.++.+.......+.+.+..+.+.+|||+|++++..++..+++.+|++
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~   82 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   82 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            45679999999999999999999999999988889988888888888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      |+|||+++++++..+..|+..+.+....    ++|+++|+||+|+.+.  .....++...++...+ ..++++||++|.|
T Consensus        83 i~v~d~t~~~s~~~~~~~~~~~~~~~~~----~~~iilv~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~e~SAk~g~g  155 (194)
T d2bcgy1          83 IIVYDVTDQESFNGVKMWLQEIDRYATS----TVLKLLVGNKCDLKDK--RVVEYDVAKEFADANK-MPFLETSALDSTN  155 (194)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECTTCTTT--CCSCHHHHHHHHHHTT-CCEEECCTTTCTT
T ss_pred             EEEEeCcchhhhhhHhhhhhhhhhcccC----CceEEEEEeccccccc--cchhHHHHhhhhhccC-cceEEEecCcCcc
Confidence            9999999999999999998888776544    7899999999999765  5677788888888777 8899999999999


Q ss_pred             hHHHHHHHHHHHHhcccccc
Q 028305          169 IDEAFLCVAEIALKNEHKDI  188 (210)
Q Consensus       169 v~~~~~~l~~~~~~~~~~~~  188 (210)
                      ++++|+.|++.+.+...+..
T Consensus       156 i~e~f~~l~~~i~~~~~~~~  175 (194)
T d2bcgy1         156 VEDAFLTMARQIKESMSQQN  175 (194)
T ss_dssp             HHHHHHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcc
Confidence            99999999999987765433

>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=2.9e-36  Score=208.75  Aligned_cols=166  Identities=33%  Similarity=0.544  Sum_probs=144.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .|||+|+|++|||||||+++|+.+.+...+.++.+ +.....+.+++..+.+.+||++|.+++......+++.+|++++|
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   83 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLV   83 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEEe
Confidence            48999999999999999999999998888877776 45567778899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||.+++++++.+..|+..+.+.....   ..|+++|+||+|+...  +.+..+++..+++..+ ++|+++||++|.|+++
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~---~~p~ilvgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~~~~i~e  157 (171)
T d2erya1          84 FSVTDRGSFEEIYKFQRQILRVKDRD---EFPMILIGNKADLDHQ--RQVTQEEGQQLARQLK-VTYMEASAKIRMNVDQ  157 (171)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSS---CCSEEEEEECTTCTTS--CSSCHHHHHHHHHHTT-CEEEECBTTTTBSHHH
T ss_pred             eccccccchhhHHHHhHHHHhhcccC---CCCEEEEEeccchhhh--ccchHHHHHHHHHHcC-CEEEEEcCCCCcCHHH
Confidence            99999999999999998877654322   6799999999999765  6778889999999988 8999999999999999


Q ss_pred             HHHHHHHHHHhcc
Q 028305          172 AFLCVAEIALKNE  184 (210)
Q Consensus       172 ~~~~l~~~~~~~~  184 (210)
                      +|..|++.+.+++
T Consensus       158 ~f~~l~~~i~k~~  170 (171)
T d2erya1         158 AFHELVRVIRKFQ  170 (171)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999986553

>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=1.9e-36  Score=209.54  Aligned_cols=166  Identities=38%  Similarity=0.670  Sum_probs=152.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      -..|||+|+|++|||||||+++|+.+.+...+.++.+...........+..+.+.+||++|++.+...+..+++.+|+++
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   83 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEE
Confidence            45799999999999999999999999999888899998888888899999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++++++.+..|+..+.+....    ++|+++|+||+|+...  +.+..+++..+++..+ ++|+++||++|.||
T Consensus        84 lv~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilvgnK~Dl~~~--~~v~~e~~~~~~~~~~-~~~~e~SAk~g~~V  156 (170)
T d1r2qa_          84 VVYDITNEESFARAKNWVKELQRQASP----NIVIALSGNKADLANK--RAVDFQEAQSYADDNS-LLFMETSAKTSMNV  156 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECGGGGGG--CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEeccchhhHHHHHHHHhhhhhhccCC----CceEEeeccccccccc--ccccHHHHHHHHHhcC-CEEEEeeCCCCCCH
Confidence            999999999999999999998776554    7899999999999765  6788899999999887 89999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 028305          170 DEAFLCVAEIALK  182 (210)
Q Consensus       170 ~~~~~~l~~~~~~  182 (210)
                      +++|+.|++.+.+
T Consensus       157 ~e~f~~l~~~i~~  169 (170)
T d1r2qa_         157 NEIFMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999987654

>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=1.7e-36  Score=210.36  Aligned_cols=168  Identities=37%  Similarity=0.679  Sum_probs=123.1

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+|+|.+|||||||+++|+++.+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..+++.+|++|
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            46799999999999999999999999988888889988998999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+++.+..|+..+......    +.|+++|+||.|+...  .....+++..++...+ .+++++||++|.|+
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilv~~k~D~~~~--~~~~~~~~~~~~~~~~-~~~~e~Sa~~g~gv  156 (173)
T d2fu5c1          84 LVYDITNEKSFDNIRNWIRNIEEHASA----DVEKMILGNKCDVNDK--RQVSKERGEKLALDYG-IKFMETSAKANINV  156 (173)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEEC--CCSC--CCSCHHHHHHHHHHHT-CEEEECCC---CCH
T ss_pred             EEEECCChhhHHHHHHHHHHhhhhccC----CceEEEEEecccchhh--cccHHHHHHHHHHhcC-CEEEEEeCCCCCCH
Confidence            999999999999999999988766544    7899999999999765  4566677888888887 89999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q 028305          170 DEAFLCVAEIALKNE  184 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~  184 (210)
                      +++|++|++.+....
T Consensus       157 ~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         157 ENAFFTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999886654

>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=2.9e-36  Score=211.20  Aligned_cols=173  Identities=68%  Similarity=1.100  Sum_probs=156.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+|+|.+|||||||+++|+++.+...+.++.+.+.........+..+.+.+||++|+..+...+..++..+|+++++
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            58999999999999999999999999989999998889888999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||.+++.++..+..|+..+..........++|+++|+||+|+.+   +....++...++......+++++||++|.|+++
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e  158 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN---RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQ  158 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC---CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc---cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHH
Confidence            99999999999999999888876655556789999999999865   456677777787777669999999999999999


Q ss_pred             HHHHHHHHHHhccccc
Q 028305          172 AFLCVAEIALKNEHKD  187 (210)
Q Consensus       172 ~~~~l~~~~~~~~~~~  187 (210)
                      +|++|++.+++.+.+.
T Consensus       159 ~f~~l~~~i~~~~~~~  174 (184)
T d1vg8a_         159 AFQTIARNALKQETEV  174 (184)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccc
Confidence            9999999998876644

>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=2.7e-36  Score=208.15  Aligned_cols=165  Identities=33%  Similarity=0.569  Sum_probs=146.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.|||+|+|++|||||||+++|+.+.+...+.++.+..+ ...+..++..+.+.+||++|++.+...+..+++.+|++|+
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            578999999999999999999999999988888877555 5566788889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+|+.+..|+..+.+....   .++|+++|+||+|+...  .....+++..+++.....+++++||++|.||+
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~---~~~p~ilvgnK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~  155 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDT---EDVPMILVGNKCDLEDE--RVVGKEQGQNLARQWCNCAFLESSAKSKINVN  155 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCC---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTTSCEEEECBTTTTBSHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCC---CCCeEEEEEEecCcccc--cccchhHHHHHHHHhCCCEEEEEcCCCCcCHH
Confidence            99999999999999999988775432   27899999999999765  56777888888888776899999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          171 EAFLCVAEIAL  181 (210)
Q Consensus       171 ~~~~~l~~~~~  181 (210)
                      ++|++|++.+.
T Consensus       156 e~F~~l~~~i~  166 (167)
T d1c1ya_         156 EIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999998875

>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=1.2e-36  Score=210.80  Aligned_cols=164  Identities=28%  Similarity=0.440  Sum_probs=144.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .|||+|+|++|+|||||+++|+++.+...+.++.+..+ ......++..+.+.+||++|++.+......+++.+|++++|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            58999999999999999999999999888888887554 45667889999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||+++++++..+..|+..+......  ..++|+++|+||+|+...  +.+..++++.+++..+ ++++++||++|.||++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~--~~~~piilVgnK~Dl~~~--~~v~~~e~~~~~~~~~-~~~~e~Sak~~~~v~e  155 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGD--VESIPIMLVGNKCDESPS--REVQSSEAEALARTWK-CAFMETSAKLNHNVKE  155 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC-----CCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTTBSHHH
T ss_pred             eecccccchhcccchhhhhhhhhcc--CCCCcEEEEeeccccccc--ccccHHHHHHHHHHcC-CeEEEEcCCCCcCHHH
Confidence            9999999999999999888765432  227899999999998654  6678889999999988 8999999999999999


Q ss_pred             HHHHHHHHHH
Q 028305          172 AFLCVAEIAL  181 (210)
Q Consensus       172 ~~~~l~~~~~  181 (210)
                      +|+.|++.+.
T Consensus       156 ~f~~l~~~~~  165 (171)
T d2erxa1         156 LFQELLNLEK  165 (171)
T ss_dssp             HHHHHHHTCC
T ss_pred             HHHHHHHHHH
Confidence            9999997653

>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=4.1e-36  Score=208.82  Aligned_cols=172  Identities=60%  Similarity=0.989  Sum_probs=137.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEe-CCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQM-DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      .+||+|+|++|||||||+++|+++.+...+.++.+.......... +.....+.+||++|++.+...+..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            589999999999999999999999988877777766555555543 3445779999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+..........++|+++|+||+|+.+. .+.+..+++..+++..+..+++++||++|.|++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~-~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~  160 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES-KKIVSEKSAQELAKSLGDIPLFLTSAKNAINVD  160 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG-GCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHH
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhh-hcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHH
Confidence            9999999999999999999987766555568899999999998753 134677888999999888999999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 028305          171 EAFLCVAEIALKNE  184 (210)
Q Consensus       171 ~~~~~l~~~~~~~~  184 (210)
                      ++|++|++++++++
T Consensus       161 e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         161 TAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999998764

>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=1.8e-35  Score=203.75  Aligned_cols=164  Identities=33%  Similarity=0.589  Sum_probs=146.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.|||+|+|++|||||||+++|+++.+...+.++.+..+. ......+..+.+.+||++|++.+......+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            4599999999999999999999999998888888876664 445678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.+++.+..|+..+.+....   .++|+++|+||+|+..   +....+++..+++..+ ++++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~---~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~-~~~~e~Sak~g~gi~  153 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDS---DDVPMVLVGNKCDLAA---RTVESRQAQDLARSYG-IPYIETSAKTRQGVE  153 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTC---SSCCEEEEEECTTCSC---CCSCHHHHHHHHHHHT-CCEEECCTTTCTTHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCC---CCCeEEEEeccccccc---ccccHHHHHHHHHHhC-CeEEEEcCCCCcCHH
Confidence            99999999999999999998876432   2689999999999865   5567788999999988 799999999999999


Q ss_pred             HHHHHHHHHHHh
Q 028305          171 EAFLCVAEIALK  182 (210)
Q Consensus       171 ~~~~~l~~~~~~  182 (210)
                      ++|..|++++.+
T Consensus       154 e~f~~i~~~i~~  165 (166)
T d1ctqa_         154 DAFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>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=9.4e-36  Score=205.56  Aligned_cols=165  Identities=27%  Similarity=0.452  Sum_probs=141.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+|+|++|+|||||+++|+.+.+...+.|+.+.++. .....++..+.+.+||++|++.+. ....+++.++++++|
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            589999999999999999999999999888898877764 445678889999999999988764 455678899999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCC-ChH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDC-NID  170 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~  170 (210)
                      ||+++++++..+..|+.........   .++|+++|+||+|+...  +.+..++++.+++.++ ++|+++||++|. ||+
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~---~~~piilvgnK~Dl~~~--r~V~~~e~~~~a~~~~-~~~~e~Saktg~gnV~  153 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKP---KNVTLILVGNKADLDHS--RQVSTEEGEKLATELA-CAFYECSACTGEGNIT  153 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTT---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-SEEEECCTTTCTTCHH
T ss_pred             cccCCccchhhhhhhcccccccccc---cCcceeeeccchhhhhh--ccCcHHHHHHHHHHhC-CeEEEEccccCCcCHH
Confidence            9999999999999887665543322   27899999999999754  6788899999999998 899999999998 599


Q ss_pred             HHHHHHHHHHHhcc
Q 028305          171 EAFLCVAEIALKNE  184 (210)
Q Consensus       171 ~~~~~l~~~~~~~~  184 (210)
                      ++|..|++.+.+++
T Consensus       154 e~F~~l~~~i~~~r  167 (168)
T d2atva1         154 EIFYELCREVRRRR  167 (168)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987653

>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=7.9e-36  Score=205.83  Aligned_cols=164  Identities=34%  Similarity=0.571  Sum_probs=145.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+|+|++|||||||+++|+++.+...+.++.+ +.......+++..+.+.+||++|++.+......+++.+|++++
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            579999999999999999999999999888877776 4456677889999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      |||++++.++..+..|+..+......   .++|+++|+||+|+...  +....+++..+++..+ .+++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~---~~~piilvgnK~Dl~~~--~~~~~~~~~~~~~~~~-~~~~e~Sak~g~~i~  154 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRY---EKVPVILVGNKVDLESE--REVSSSEGRALAEEWG-CPFMETSAKSKTMVD  154 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTT---SCCCEEEEEECGGGGGG--CCSCHHHHHHHHHHHT-SCEEEECTTCHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccC---CCCCEEEEEEccchhhc--ccchHHHHHHHHHHcC-CeEEEECCCCCcCHH
Confidence            99999999999999999988765432   27899999999998754  5667788899999888 799999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          171 EAFLCVAEIAL  181 (210)
Q Consensus       171 ~~~~~l~~~~~  181 (210)
                      ++|+.|++++.
T Consensus       155 e~f~~i~~~i~  165 (167)
T d1kaoa_         155 ELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            99999998764

>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=5.2e-35  Score=202.23  Aligned_cols=165  Identities=40%  Similarity=0.668  Sum_probs=140.2

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCC-cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      +..|||+|+|++|||||||+++|+.+.+.. .+.++.+.+.....+..++..+.+.+|||+|++.+..++..+++.+|++
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            467999999999999999999999988754 4455567788888888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCN  168 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  168 (210)
                      ++|||++++.++..+..|+..+......    ..|+++|+||+|+...  ..+..+++..+++..+ ++++++||++|.|
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~iilv~~k~d~~~~--~~v~~~~~~~~~~~~~-~~~~e~Sak~g~g  156 (170)
T d2g6ba1          84 LLLYDVTNKASFDNIQAWLTEIHEYAQH----DVALMLLGNKVDSAHE--RVVKREDGEKLAKEYG-LPFMETSAKTGLN  156 (170)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECCSTTSC--CCSCHHHHHHHHHHHT-CCEEECCTTTCTT
T ss_pred             EEEecCCcccchhhhhhhhhhhhhccCC----CceEEEEEeeechhhc--ccccHHHHHHHHHHcC-CEEEEEeCCCCcC
Confidence            9999999999999999999888776654    6799999999999765  6777889999999988 8999999999999


Q ss_pred             hHHHHHHHHHHHH
Q 028305          169 IDEAFLCVAEIAL  181 (210)
Q Consensus       169 v~~~~~~l~~~~~  181 (210)
                      ++++|++|++.+.
T Consensus       157 i~e~f~~l~~~i~  169 (170)
T d2g6ba1         157 VDLAFTAIAKELK  169 (170)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999998875

>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=5.1e-35  Score=203.53  Aligned_cols=169  Identities=37%  Similarity=0.634  Sum_probs=152.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ..++||+|+|++|+|||||+++|.++.+...+.++.+.......+.+++..+.+.+|||+|++++..++..+++.+|+++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   84 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   84 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            46799999999999999999999999998888888888888888899999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.++..+..|+..+.+...   ....|+++++||.|...   +.+..+++..+++..+ +.++++||++|.|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~~~i~~~~nk~d~~~---~~v~~~~~~~~~~~~~-~~~~e~Sa~tg~gv  157 (177)
T d1x3sa1          85 LVYDVTRRDTFVKLDNWLNELETYCT---RNDIVNMLVGNKIDKEN---REVDRNEGLKFARKHS-MLFIEASAKTCDGV  157 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCS---CSCCEEEEEEECTTSSS---CCSCHHHHHHHHHHTT-CEEEECCTTTCTTH
T ss_pred             EEEECCCccccccchhhhhhhccccc---ccceeeEEEeecccccc---ccccHHHHHHHHHHCC-CEEEEEeCCCCCCH
Confidence            99999999999999999988865432   22679999999999765   6678889999999988 89999999999999


Q ss_pred             HHHHHHHHHHHHhccc
Q 028305          170 DEAFLCVAEIALKNEH  185 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~  185 (210)
                      +++|+++++.+++.+.
T Consensus       158 ~e~f~~l~~~l~~~p~  173 (177)
T d1x3sa1         158 QCAFEELVEKIIQTPG  173 (177)
T ss_dssp             HHHHHHHHHHHHTSGG
T ss_pred             HHHHHHHHHHHccCcc
Confidence            9999999999998754

>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=3.5e-35  Score=203.10  Aligned_cols=165  Identities=36%  Similarity=0.666  Sum_probs=149.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      ..+||+|+|++|+|||||+++|+.+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++++
T Consensus         2 ~~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             cEEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            36899999999999999999999999998889999888888889999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-CCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG-SSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      |||++++.+++.+..|+..+......    ..|+++|+||+|+... ..+.+..+++..+++..+ ++|+++||++|.||
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~----~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~-~~~~e~Sak~g~gV  156 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASK----DIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKG-LLFFETSAKTGENV  156 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCT----TCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHT-CEEEECCTTTCTTH
T ss_pred             EEeCCcccchhhhhhhhhhhcccccc----ccceeeeecccccccccchhhhhHHHHHHHHHHcC-CEEEEecCCCCcCH
Confidence            99999999999999999887766544    6799999999998543 346788899999999998 79999999999999


Q ss_pred             HHHHHHHHHHH
Q 028305          170 DEAFLCVAEIA  180 (210)
Q Consensus       170 ~~~~~~l~~~~  180 (210)
                      +++|..|++.+
T Consensus       157 ~e~F~~i~~~i  167 (170)
T d1ek0a_         157 NDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHHHh
Confidence            99999998654

>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=4.7e-35  Score=201.71  Aligned_cols=164  Identities=40%  Similarity=0.748  Sum_probs=143.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||||++.+..++..+++++|++++|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            58999999999999999999999999988899999999999999999999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      ||.+++.+++.+..|+..+......    ..|++++++|.|+..   +....++++.++...+ .+++++||++|.|+++
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~----~~~~i~~~~k~d~~~---~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~e  153 (166)
T d1g16a_          82 YDITDERTFTNIKQWFKTVNEHAND----EAQLLLVGNKSDMET---RVVTADQGEALAKELG-IPFIESSAKNDDNVNE  153 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCT----TCEEEEEEECTTCTT---CCSCHHHHHHHHHHHT-CCEEECBTTTTBSHHH
T ss_pred             EECCCccCHHHHHhhhhhhhccccC----cceeeeecchhhhhh---hhhhHHHHHHHHHhcC-CeEEEECCCCCCCHHH
Confidence            9999999999999888888776554    678999999999865   5567788899999888 8999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 028305          172 AFLCVAEIALKN  183 (210)
Q Consensus       172 ~~~~l~~~~~~~  183 (210)
                      +|++|++.+.++
T Consensus       154 ~f~~l~~~i~~k  165 (166)
T d1g16a_         154 IFFTLAKLIQEK  165 (166)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999988654

>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=4.9e-35  Score=204.67  Aligned_cols=169  Identities=26%  Similarity=0.435  Sum_probs=144.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .++.+||+|+|++|||||||+++|+.+.+...+.++.+.. ....+..++..+.+.+||++|++.+......+++.+|++
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~-~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCE-EEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeec-eeeeeeccCcceEEEeecccccccchhhhhhccccccee
Confidence            3578999999999999999999999999988888887644 456677899999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCcE
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      ++|||++++++|+++..|+....+....    ++|+++|+||+|+...          ........++..+++..+.+.|
T Consensus        81 ilv~d~~~~~sf~~i~~~~~~~~~~~~~----~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  156 (183)
T d1mh1a_          81 LICFSLVSPASFENVRAKWYPEVRHHCP----NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  156 (183)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHST----TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             eeeeccchHHHHHHHHHHHHHHHHHhCC----CCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceE
Confidence            9999999999999987654444443332    7899999999998543          1234566788888998888999


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHh
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      ++|||++|.||+++|+.|++.++.
T Consensus       157 ~E~SAk~~~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         157 LECSALTQRGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             EEcCCCCCcCHHHHHHHHHHHHcC
Confidence            999999999999999999998863

>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=7.3e-36  Score=209.47  Aligned_cols=170  Identities=40%  Similarity=0.661  Sum_probs=147.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCC----------eEEEEEEEeCCCccccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDD----------KLVTLQIWDTAGQERFQSLGS   79 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~g~~~~~~~~~   79 (210)
                      +..+||+|+|++|+|||||+++|+++.+...+.++.+.++....+.+++          ..+.+.+|||+|++++..++.
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            4579999999999999999999999999888888887777666665433          357899999999999999999


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      .+++++|++|+|||++++.+++.+..|+..+....   ....+|+++|+||+|+.+.  +.+..+++..+++..+ ++++
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~iilv~nK~Dl~~~--~~v~~~e~~~~~~~~~-~~~~  156 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA---YCENPDIVLIGNKADLPDQ--REVNERQARELADKYG-IPYF  156 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCC---TTTCCEEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CCEE
T ss_pred             HHHhcCCEEEEEEeccccccceeeeeccchhhhhc---cCCCceEEEEeeeccchhh--hcchHHHHHHHHHHcC-CEEE
Confidence            99999999999999999999999999887765432   3347799999999999764  6788899999999988 7999


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhccc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++||++|.|++++|++|++.+.++.+
T Consensus       157 e~Sak~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         157 ETSAATGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999986644

>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=1.7e-34  Score=201.09  Aligned_cols=166  Identities=22%  Similarity=0.401  Sum_probs=143.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      ..||+|+|++|||||||+++|+.+.+...+.++.+. ........++..+.+.+||++|++.+......+++.+|++++|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-cccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            479999999999999999999999998888887754 4455667888999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----------CCcccchHHHHHHHHHcCCCcEEEe
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----------SSRVVPQKKALEWCAYRGNIPYFET  161 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~  161 (210)
                      ||+++++||+.+..|+.........    ++|+++|+||+|+...          ..+.+..++...+++..+...|++|
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~----~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~  156 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCP----NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  156 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCT----TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             eecccCCCHHHHHHHHHHHHhccCC----cceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEE
Confidence            9999999999988776665544333    7899999999998542          2256788899999999987899999


Q ss_pred             cCCCCCC-hHHHHHHHHHHHHh
Q 028305          162 SAKEDCN-IDEAFLCVAEIALK  182 (210)
Q Consensus       162 Sa~~~~~-v~~~~~~l~~~~~~  182 (210)
                      ||++|.| ++++|+.+++.+++
T Consensus       157 SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         157 SALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             BTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eCCCCCcCHHHHHHHHHHHHhc
Confidence            9999985 99999999999875

>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=2.7e-34  Score=199.05  Aligned_cols=170  Identities=23%  Similarity=0.346  Sum_probs=142.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      -+.+||+++|++|||||||+++|+++.+... .++.+. .+...+.+++..+.+.+|||+|+..+     .+++.+|++|
T Consensus         3 ~p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~~-~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~i   75 (175)
T d2bmja1           3 IPELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTESE-QYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVI   75 (175)
T ss_dssp             CCEEEEEEECCTTTTHHHHHHHHHHSCCCCC-CCSSCE-EEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEE
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHhCCCCCc-CCccce-eEEEEeecCceEEEEEEeeccccccc-----ccccccceeE
Confidence            3579999999999999999999999988643 344443 44677788999999999999998754     3678899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      +|||++++.+|+++..|+..+...... ...++|+++|+||.|+.....+.+..+++..++.......|+++||++|.|+
T Consensus        76 lVfd~~~~~Sf~~~~~~~~~i~~~~~~-~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v  154 (175)
T d2bmja1          76 FVFSLEDENSFQAVSRLHGQLSSLRGE-GRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNV  154 (175)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHCC---CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTH
T ss_pred             EEeecccchhhhhhHHHHHHHHHHhhc-ccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCH
Confidence            999999999999999999888765432 2347899999999998776667788889988877766689999999999999


Q ss_pred             HHHHHHHHHHHHhccccc
Q 028305          170 DEAFLCVAEIALKNEHKD  187 (210)
Q Consensus       170 ~~~~~~l~~~~~~~~~~~  187 (210)
                      +++|..+++.+.+.++++
T Consensus       155 ~~~F~~l~~~i~~~~~~~  172 (175)
T d2bmja1         155 DRVFQEVAQKVVTLRKQQ  172 (175)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhc
Confidence            999999999998887654

>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=1.7e-34  Score=199.90  Aligned_cols=166  Identities=23%  Similarity=0.343  Sum_probs=138.1

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCC---cccccccccccccCCc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAG---QERFQSLGSAFYRGAD   86 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g---~~~~~~~~~~~~~~~d   86 (210)
                      ..|||+++|++|+|||||+++|.+..+. ....++++.+.....+.+++..+.+.+||+++   ++++  +...+++.+|
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            4689999999999999999999977654 33445566677778888999999999999765   4444  4567789999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      ++|+|||++++.+++.+..|+..+.....   ..++|+++|+||+|+...  +++..++++.+++..+ ++++++||++|
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~---~~~~piilvgnK~Dl~~~--~~v~~~~~~~~a~~~~-~~~~e~Sak~g  153 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQ---TEDIPIILVGNKSDLVRC--REVSVSEGRACAVVFD-CKFIETSAAVQ  153 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGG---GTTSCEEEEEECTTCGGG--CCSCHHHHHHHHHHHT-CEEEECBTTTT
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccc---cCCceEEEEecccccccc--ccccHHHHHHHHHHcC-CeEEEEeCCCC
Confidence            99999999999999999999988875432   127899999999999764  6778888999999988 89999999999


Q ss_pred             CChHHHHHHHHHHHHhcc
Q 028305          167 CNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~~  184 (210)
                      .|++++|+.|++.+..++
T Consensus       154 ~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         154 HNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             BSHHHHHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHHHHHcc
Confidence            999999999999987654

>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=5e-34  Score=196.33  Aligned_cols=161  Identities=37%  Similarity=0.673  Sum_probs=142.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc-cccccccCCcEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS-LGSAFYRGADCCV   89 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~vi   89 (210)
                      +.+||+|+|++|||||||+++|+.+.+...+.++.+.........+......+.+||++|...... .+..+++++|++|
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            468999999999999999999999999988888888888888888999999999999999877654 4567889999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCC---C
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKE---D  166 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~  166 (210)
                      +|||++++++++.+..|+..+.+....   .++|+++|+||+|+.+.  +.+..++++.+++..+ .+++++||++   +
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~---~~~pi~lvgnK~Dl~~~--~~v~~~~~~~~~~~~~-~~~~e~SAkt~~~~  154 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLA---NDIPRILVGNKCDLRSA--IQVPTDLAQKFADTHS-MPLFETSAKNPNDN  154 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCC---SCCCEEEEEECTTCGGG--CCSCHHHHHHHHHHTT-CCEEECCSSSGGGG
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccC---CCCeEEEEeccccchhc--cchhHHHHHHHHHHCC-CEEEEEecccCCcC
Confidence            999999999999999999998876542   27899999999999765  5688899999999988 7999999986   5


Q ss_pred             CChHHHHHHHH
Q 028305          167 CNIDEAFLCVA  177 (210)
Q Consensus       167 ~~v~~~~~~l~  177 (210)
                      .||+++|++|+
T Consensus       155 ~~V~e~F~~lA  165 (165)
T d1z06a1         155 DHVEAIFMTLA  165 (165)
T ss_dssp             SCHHHHHHHHC
T ss_pred             cCHHHHHHHhC
Confidence            69999999874

>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=99.98  E-value=4.9e-32  Score=186.10  Aligned_cols=160  Identities=26%  Similarity=0.418  Sum_probs=126.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEE
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLV   91 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v   91 (210)
                      .+||+++|++|+|||||+++|..+.+...+.+|.+.++.  .+..++  +.+.+||+||+..+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeee--EEEEEeeccccccccccccccccccchhhcc
Confidence            689999999999999999999999988888887766553  344444  7899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcc-cchHHHHHHHHHcCCCcEEEecCCCCCChH
Q 028305           92 YDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRV-VPQKKALEWCAYRGNIPYFETSAKEDCNID  170 (210)
Q Consensus        92 ~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  170 (210)
                      ||++++.++.....|+..+.....   ..++|+++|+||.|+.+..... .........+... ...++++||++|.|++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~---~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~-~~~~~e~Sa~~g~gv~  153 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQ---LQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDR-EICCYSISCKEKDNID  153 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGG---GTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSS-CEEEEECCTTTCTTHH
T ss_pred             cccccccccchhhhhhhhhhhhhc---ccCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhC-CCEEEEEeCcCCcCHH
Confidence            999999999998888777765422   2378999999999997542211 1111111222222 3679999999999999


Q ss_pred             HHHHHHHHH
Q 028305          171 EAFLCVAEI  179 (210)
Q Consensus       171 ~~~~~l~~~  179 (210)
                      ++|++|++.
T Consensus       154 e~~~~l~~~  162 (164)
T d1zd9a1         154 ITLQWLIQH  162 (164)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            999999874

>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=99.98  E-value=1e-31  Score=184.65  Aligned_cols=160  Identities=19%  Similarity=0.271  Sum_probs=122.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+|+|++|||||||+++|.+..+. ...++.+...  ..+...+  +.+.+||++|++.+...+..+++.++++++
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   75 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIW   75 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEE--EEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeee--eeccccc--cceeeeecCcchhhhhHHHhhhhhhhccee
Confidence            3589999999999999999999987664 4455555443  3344444  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH--H--HcCCCcEEEecCCCC
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC--A--YRGNIPYFETSAKED  166 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~Sa~~~  166 (210)
                      +||+++..++.....++..+....   ...++|+++|+||+|+.+...    .++.....  .  ......++++||++|
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~---~~~~~p~iiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  148 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEE---RLAGATLLIFANKQDLPGALS----CNAIQEALELDSIRSHHWRIQGCSAVTG  148 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCG---GGTTCEEEEEEECTTSTTCCC----HHHHHHHTTGGGCCSSCEEEEECCTTTC
T ss_pred             eeecccchhHHHHHHhhhhhhhhc---ccCCCceEEEEeccccccccC----HHHHHHHHHhhhhhcCCCEEEEEECCCC
Confidence            999999999988877766655322   123789999999999975421    12222211  1  122367899999999


Q ss_pred             CChHHHHHHHHHHHHh
Q 028305          167 CNIDEAFLCVAEIALK  182 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~  182 (210)
                      .|++++|++|++.+.+
T Consensus       149 ~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         149 EDLLPGIDWLLDDISS  164 (165)
T ss_dssp             TTHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            9999999999998764

>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=6.1e-32  Score=187.71  Aligned_cols=164  Identities=20%  Similarity=0.282  Sum_probs=123.7

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCc
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGAD   86 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   86 (210)
                      ...+..+||+++|++|||||||+++|.++.+.. ..++.+.+  ...+...+  +.+.+||++|++.+...+..+++.+|
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~--~~~i~~~~--~~~~i~d~~g~~~~~~~~~~~~~~~~   85 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFN--IKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTD   85 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEE--EEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCS
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeee--EEEeccCC--eeEeEeeccccccchhHHHHHhhccc
Confidence            345678999999999999999999999887753 22333333  33444444  78999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHH-HHHHHcCCCcEEEecCCC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKAL-EWCAYRGNIPYFETSAKE  165 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Sa~~  165 (210)
                      ++++|||++++.++.....|+..+....   ...++|+++|+||+|+.+........+... ..+. .....++++||++
T Consensus        86 ~ii~v~d~~d~~s~~~~~~~~~~~~~~~---~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~SA~t  161 (176)
T d1fzqa_          86 ILIYVIDSADRKRFEETGQELTELLEEE---KLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIR-DRVWQIQSCSALT  161 (176)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHTTCG---GGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCC-SSCEEEEECCTTT
T ss_pred             eeEEeeccccccchhhhhhhhhhhhhhh---ccCCCeEEEEEEeccccccccHHHHHHHHHHHHHH-hcCCEEEEEeCCC
Confidence            9999999999999999888777765432   223789999999999976432211111111 1111 2236799999999


Q ss_pred             CCChHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEI  179 (210)
Q Consensus       166 ~~~v~~~~~~l~~~  179 (210)
                      |.|++++|++|++.
T Consensus       162 g~gv~e~~~~l~~~  175 (176)
T d1fzqa_         162 GEGVQDGMNWVCKN  175 (176)
T ss_dssp             CTTHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhc
Confidence            99999999999874

>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=1.4e-31  Score=186.81  Aligned_cols=167  Identities=20%  Similarity=0.331  Sum_probs=121.1

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcE
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADC   87 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.+||+++|++|||||||+++|..+.+.. ..++.+...  ......  .+.+.+||++|++.+...+..++..+|+
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~   87 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNV--ETLSYK--NLKLNVWDLGGQTSIRPYWRCYYADTAA   87 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCE--EEEEET--TEEEEEEEEC----CCTTGGGTTTTEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEE--EEEeeC--CEEEEEEecccccccchhHHhhhcccee
Confidence            45678999999999999999999998776642 334443333  223333  4789999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHHHHHHcCCCcEEEecCCCC
Q 028305           88 CVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALEWCAYRGNIPYFETSAKED  166 (210)
Q Consensus        88 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  166 (210)
                      +++|+|++++.++.....|+..+....   ...++|+++|+||+|+.+... .++........+... ...+++|||++|
T Consensus        88 ii~v~d~~d~~s~~~~~~~l~~~~~~~---~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~-~~~~~e~SA~~g  163 (182)
T d1moza_          88 VIFVVDSTDKDRMSTASKELHLMLQEE---ELQDAALLVFANKQDQPGALSASEVSKELNLVELKDR-SWSIVASSAIKG  163 (182)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHTTSS---TTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSS-CEEEEEEBGGGT
T ss_pred             EEEEeeecccccchhHHHHHHHHHHhh---ccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhC-CCEEEEEECCCC
Confidence            999999999999998888876654432   233789999999999975321 111111111112222 367999999999


Q ss_pred             CChHHHHHHHHHHHHhc
Q 028305          167 CNIDEAFLCVAEIALKN  183 (210)
Q Consensus       167 ~~v~~~~~~l~~~~~~~  183 (210)
                      +|++++|++|++.+.+.
T Consensus       164 ~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         164 EGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHc
Confidence            99999999999988664

>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=5.3e-31  Score=182.40  Aligned_cols=162  Identities=16%  Similarity=0.290  Sum_probs=121.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      ..+.+||+++|++|||||||+++|..+.+.. ..++.+...  ......  .+.+.+||+||+..+...+..+++.++++
T Consensus         9 ~~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   83 (173)
T d1e0sa_           9 GNKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNV--ETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGL   83 (173)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEE--EEEEET--TEEEEEEEESCCGGGHHHHGGGTTTCCEE
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeE--EEeecc--ceeeEEecCCCcchhhhHHHhhhcccceE
Confidence            3567999999999999999999999777642 333333332  333333  37899999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc-ccchHHHHHHHHHcCCCcEEEecCCCCC
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR-VVPQKKALEWCAYRGNIPYFETSAKEDC  167 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  167 (210)
                      ++|+|++++.++..+..|+........   ..++|+++|+||+|+.+.... ++..+.....+... ...++++||++|+
T Consensus        84 i~v~D~s~~~~~~~~~~~l~~~~~~~~---~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~-~~~~~e~SA~tg~  159 (173)
T d1e0sa_          84 IFVVDCADRDRIDEARQELHRIINDRE---MRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDR-NWYVQPSCATSGD  159 (173)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTSGG---GTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSS-CEEEEECBTTTTB
T ss_pred             EEEEecccchhHHHHHHHHHHHhhhcc---cccceeeeeeecccccccccHHHHHHHHHHHHHHhC-CCEEEEeeCCCCc
Confidence            999999999999998888777654321   227899999999999754221 11111111222222 3578999999999


Q ss_pred             ChHHHHHHHHHH
Q 028305          168 NIDEAFLCVAEI  179 (210)
Q Consensus       168 ~v~~~~~~l~~~  179 (210)
                      |++++|++|.+.
T Consensus       160 gv~e~~~~l~~~  171 (173)
T d1e0sa_         160 GLYEGLTWLTSN  171 (173)
T ss_dssp             THHHHHHHHHHH
T ss_pred             CHHHHHHHHHHh
Confidence            999999999875

>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=2.1e-29  Score=171.98  Aligned_cols=159  Identities=14%  Similarity=0.234  Sum_probs=121.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEE
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVY   92 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~   92 (210)
                      +||+|+|++|||||||+++|.++.+...........     ...+...+.+.+||++|...+......++..++++++++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV-----ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE-----EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE-----EEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            589999999999999999999888765443332211     123345588999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCC-cccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305           93 DVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSS-RVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus        93 d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      |++++.++..+..|+..+.....   ...+|+++++||.|+..... .++..+....+++..+ .+++++||++|.|+++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~---~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~-~~~~~~SAktg~gi~e  151 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDE---LRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRN-WYIQATCATSGDGLYE  151 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGG---GTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCC-EEEEECBTTTTBTHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhc---ccCceEEEEeecccccccccHHHHHHHHHHHHHhhCC-CEEEEeECCCCCCHHH
Confidence            99999999998888877765332   23779999999999875422 1222222222333333 7899999999999999


Q ss_pred             HHHHHHHHH
Q 028305          172 AFLCVAEIA  180 (210)
Q Consensus       172 ~~~~l~~~~  180 (210)
                      +|++|.+++
T Consensus       152 ~~~~l~~~l  160 (160)
T d1r8sa_         152 GLDWLSNQL  160 (160)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhcC
Confidence            999998763

>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=6.5e-27  Score=162.16  Aligned_cols=159  Identities=17%  Similarity=0.277  Sum_probs=114.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      ++.+||+|+|.+|||||||+++|.++.+.... ++.+..  .......  ...+.+||+++.+........++..+++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~~~--~~~~~~~--~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i   87 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSN--VEEIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVI   87 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSCSS--CEEEEET--TEEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCccc-ccccee--EEEEeec--ceEEEEeccccccccccchhhhhccceeee
Confidence            56799999999999999999999988776322 222211  2222333  377999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH----HcCCCcEEEecCCC
Q 028305           90 LVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA----YRGNIPYFETSAKE  165 (210)
Q Consensus        90 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~  165 (210)
                      +++|.++..++.....+........   ...+.|+++|+||+|+.....    ..++.....    .....+++++||++
T Consensus        88 ~v~d~~d~~~~~~~~~~~~~~~~~~---~~~~~p~iiv~nK~Dl~~~~~----~~~i~~~~~~~~~~~~~~~~~~~Sa~t  160 (177)
T d1zj6a1          88 VVVDSTDRERISVTREELYKMLAHE---DLRKAGLLIFANKQDVKECMT----VAEISQFLKLTSIKDHQWHIQACCALT  160 (177)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSG---GGTTCEEEEEEECTTSTTCCC----HHHHHHHHTGGGCCSSCEEEEECBTTT
T ss_pred             eecccccccchhhhhhhhhhhhhcc---cccceEEEEEEEcccccccCc----HHHHHHHHHHHhhHhcCCEEEEEeCCC
Confidence            9999999999888766555444322   223789999999999875422    222222221    22236799999999


Q ss_pred             CCChHHHHHHHHHHH
Q 028305          166 DCNIDEAFLCVAEIA  180 (210)
Q Consensus       166 ~~~v~~~~~~l~~~~  180 (210)
                      |+|++++|++|.+++
T Consensus       161 g~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         161 GEGLCQGLEWMMSRL  175 (177)
T ss_dssp             TBTHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999999875

>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=99.94  E-value=1e-26  Score=161.32  Aligned_cols=160  Identities=17%  Similarity=0.127  Sum_probs=111.4

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc--------ccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ--------SLGSA   80 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~   80 (210)
                      ...-.|+|+|.+|+|||||+++|++.... ....++++...........+  ..+.+|||||.....        .....
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~   80 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYE   80 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhccccccc
Confidence            34557999999999999999999987643 22333344444444445555  568999999964432        22234


Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEE
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFE  160 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (210)
                      .++.+|++++|+|++++..... ..|...+... ..    +.|+++|+||+|+...     ..+....+.+..+...+++
T Consensus        81 ~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~----~~piilv~NK~Dl~~~-----~~~~~~~~~~~~~~~~~~~  149 (178)
T d1wf3a1          81 ALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VG----KVPILLVGNKLDAAKY-----PEEAMKAYHELLPEAEPRM  149 (178)
T ss_dssp             HTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TT----TSCEEEEEECGGGCSS-----HHHHHHHHHHTSTTSEEEE
T ss_pred             ccccccceeeeechhhhhcccc-cchhhheecc-cc----chhhhhhhcccccccC-----HHHHHHHHHhhcccCceEE
Confidence            5678999999999988654332 3333444332 22    6799999999998653     2334455556666678999


Q ss_pred             ecCCCCCChHHHHHHHHHHHHh
Q 028305          161 TSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       161 ~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +||++|.|+++++++|++.+.+
T Consensus       150 iSA~~~~gi~~L~~~i~~~lpe  171 (178)
T d1wf3a1         150 LSALDERQVAELKADLLALMPE  171 (178)
T ss_dssp             CCTTCHHHHHHHHHHHHTTCCB
T ss_pred             EecCCCCCHHHHHHHHHHhCCC
Confidence            9999999999999999886643

>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=99.93  E-value=6.2e-25  Score=150.66  Aligned_cols=163  Identities=20%  Similarity=0.326  Sum_probs=120.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+++|++|||||||+++|+++.+... .++.+.  .......++  +.+.+||.+|...........+...+++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGF--NVETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSE--EEEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccce--eeeeeccCc--eEEEEeeccccccccccchhhhhhhhhhhh
Confidence            348999999999999999999999887643 233332  223333444  678999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc-ccchHHHHHHHHHcCCCcEEEecCCCCCCh
Q 028305           91 VYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR-VVPQKKALEWCAYRGNIPYFETSAKEDCNI  169 (210)
Q Consensus        91 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  169 (210)
                      ++|+.+..++.....++.......   .....|+++++||.|+...... +...+....++... ..+++++||++|.|+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~-~~~~~~~SA~~g~gv  154 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEE---ELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDR-KWQIFKTSATKGTGL  154 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCG---GGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTS-CEEEEECCTTTCTTH
T ss_pred             hhhhhhcchhhhccchhhhhhhhh---ccccceEEEEEeeccccccccHHHHHHHHHHHHHhcC-CCEEEEEeCCCCCCH
Confidence            999999888887776555444322   2226799999999999764221 12222222233333 378999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 028305          170 DEAFLCVAEIALK  182 (210)
Q Consensus       170 ~~~~~~l~~~~~~  182 (210)
                      +++|++|++.+.+
T Consensus       155 ~e~~~~l~~~l~~  167 (169)
T d1upta_         155 DEAMEWLVETLKS  167 (169)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999997744

>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=99.93  E-value=8.5e-26  Score=154.15  Aligned_cols=151  Identities=20%  Similarity=0.259  Sum_probs=108.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccc--------cccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSL--------GSAFYR   83 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~   83 (210)
                      +||+++|++|||||||+|+|++.... ....++.+...........+  ..+.+||++|..+....        ...++.
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            79999999999999999999977654 23334444444444555555  56889999995443222        234467


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|++++++|..+..++.....|...+.... .    +.|+++|+||+|+...... .         ......+++++||
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~----~~~iilv~NK~Dl~~~~~~-~---------~~~~~~~~~~iSA  144 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLP-A----KLPITVVRNKADITGETLG-M---------SEVNGHALIRLSA  144 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-T----TCCEEEEEECHHHHCCCCE-E---------EEETTEEEEECCT
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcc-c----ccceeeccchhhhhhhHHH-H---------HHhCCCcEEEEEC
Confidence            8999999999998877766665554544432 2    6799999999998654211 1         1223478999999


Q ss_pred             CCCCChHHHHHHHHHHH
Q 028305          164 KEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~  180 (210)
                      ++|.|+++++++|.+.+
T Consensus       145 k~~~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         145 RTGEGVDVLRNHLKQSM  161 (161)
T ss_dssp             TTCTTHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHhhC
Confidence            99999999999998863

>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=4e-25  Score=151.02  Aligned_cols=153  Identities=22%  Similarity=0.326  Sum_probs=115.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYD   93 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d   93 (210)
                      ||+++|++|||||||+++|.++.+. ...++.+...  ......  ...+.+||++|...+......+...++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTS--EELAIG--NIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEE--EEECCT--TCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeE--EEeccC--CeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            7999999999999999999998876 3444444333  233333  3668999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHH-----------HcCCCcEEEec
Q 028305           94 VNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCA-----------YRGNIPYFETS  162 (210)
Q Consensus        94 ~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~S  162 (210)
                      .++..++.....++.......   ...+.|++++++|.|+...    ....++.....           ......++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~i~i~~~k~d~~~~----~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~S  149 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIA---ELKDVPFVILGNKIDAPNA----VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCS  149 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCT---TTTTCCEEEEEECTTSSSC----CCHHHHHHHHTCSSCCC---CCSSCCEEEEEEB
T ss_pred             ccchhhhhhhhHHHHhhhhhh---ccCCceEEEEecccccccc----CCHHHHHHHhhhhhhhHHHhhcccCCCEEEEee
Confidence            999999888777766665432   3347899999999998653    22222222211           11235699999


Q ss_pred             CCCCCChHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAE  178 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~  178 (210)
                      |++|+|++|+|++|.+
T Consensus       150 A~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         150 VVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             TTTTBSHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHhC
Confidence            9999999999999975

>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=99.93  E-value=2e-25  Score=156.71  Aligned_cols=160  Identities=15%  Similarity=0.160  Sum_probs=111.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+++|+.|||||||+++|....++....     .  ...+..  ....+.+||++|++.+...+..+++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~~-----~--~~~~~~--~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTGI-----V--ETHFTF--KDLHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCSE-----E--EEEEEE--TTEEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCccE-----E--EEEEEe--eeeeeeeeccccccccccchhhcccCCceeee
Confidence            36899999999999999999999776653322     1  122333  34789999999999999999999999999999


Q ss_pred             EEECCChhhHHH-----------HHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC-----C--------CcccchHHH
Q 028305           91 VYDVNVQKTFES-----------LQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG-----S--------SRVVPQKKA  146 (210)
Q Consensus        91 v~d~~~~~s~~~-----------~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~-----~--------~~~~~~~~~  146 (210)
                      |+|+++..++..           ...|...+.    .....+.|+++++||+|+...     .        .......+.
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~----~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICN----NKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEA  147 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHT----CGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhc----ccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHH
Confidence            999998776522           223333332    222337899999999996211     0        000111111


Q ss_pred             -----HHHHHHc-----CCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          147 -----LEWCAYR-----GNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       147 -----~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                           ..+....     +.+.+++|||++|.||+++|+.+.+.+++.
T Consensus       148 ~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         148 AAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             HHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence                 1111111     234578999999999999999999988765

>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=4.9e-25  Score=152.80  Aligned_cols=164  Identities=13%  Similarity=0.081  Sum_probs=109.3

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccce-------eeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKAT-------IGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFY   82 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   82 (210)
                      .+.++|+++|++|+|||||+|+|++..........       .+...........+  ..+.++|++|+.++.......+
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~l   80 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAA   80 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHT
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCC--ccccccccccccccccchhhhh
Confidence            35679999999999999999999854322111111       11111111222333  5688999999999988888889


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---CCCcEE
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---GNIPYF  159 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---~~~~~~  159 (210)
                      ..+|++++++|.++.........+ ..+...       ++|+++|+||+|+.+.+......+..+.+....   ...+++
T Consensus        81 ~~~d~~ilv~d~~~g~~~~~~~~~-~~~~~~-------~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv  152 (179)
T d1wb1a4          81 DIIDLALIVVDAKEGPKTQTGEHM-LILDHF-------NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSII  152 (179)
T ss_dssp             TSCCEEEEEEETTTCSCHHHHHHH-HHHHHT-------TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEE
T ss_pred             hhccccccccccccccchhhhhhh-hhhhhc-------CCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEE
Confidence            999999999999986443332222 222221       789999999999976422222223333333322   236899


Q ss_pred             EecCCCCCChHHHHHHHHHHHHhc
Q 028305          160 ETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ++||++|.|++++++.|.+.+.+.
T Consensus       153 ~iSA~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         153 PISAKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHS
T ss_pred             EEEccCCcCHHHHHHHHHhcCCcc
Confidence            999999999999999999888764

>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=9.2e-25  Score=151.65  Aligned_cols=160  Identities=14%  Similarity=0.033  Sum_probs=104.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-------ccccccccCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-------SLGSAFYRGAD   86 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~~~~d   86 (210)
                      +|+++|.+|||||||+|+|++.........+.+.......... .....+.+|||||.....       ......+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEV-SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEEC-SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeee-cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            4999999999999999999876544333333333333332222 233568899999943211       11234467889


Q ss_pred             EEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCC
Q 028305           87 CCVLVYDVNVQK--TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAK  164 (210)
Q Consensus        87 ~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  164 (210)
                      ++++++|.....  .......|+........     ++|+++|+||+|+...    ...++........+ .+++++||+
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~-----~~p~iiv~NK~D~~~~----~~~~~~~~~~~~~~-~~~~~iSA~  151 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPALL-----RRPSLVALNKVDLLEE----EAVKALADALAREG-LAVLPVSAL  151 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHHHH-----HSCEEEEEECCTTSCH----HHHHHHHHHHHTTT-SCEEECCTT
T ss_pred             hhhhhcccccccccchhhhhhhhhccccccc-----hhhhhhhhhhhhhhhH----HHHHHHHHHHHhcC-CeEEEEEcC
Confidence            999999986542  33333333332211111     5699999999999753    22334444445444 899999999


Q ss_pred             CCCChHHHHHHHHHHHHhcc
Q 028305          165 EDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       165 ~~~~v~~~~~~l~~~~~~~~  184 (210)
                      +|.|++++++.|.+.+....
T Consensus       152 tg~gid~L~~~i~~~l~~~~  171 (180)
T d1udxa2         152 TGAGLPALKEALHALVRSTP  171 (180)
T ss_dssp             TCTTHHHHHHHHHHHHHTSC
T ss_pred             CCCCHHHHHHHHHHHHhhcC
Confidence            99999999999988876543

>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=1.1e-24  Score=153.47  Aligned_cols=165  Identities=19%  Similarity=0.118  Sum_probs=122.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+++|+.|||||||+++|..+.+.  +.||.+.+...  +..  ..+.+.+||++|++.+...+..++..++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~~--~~~--~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYP--FDL--QSVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEEE--EEC--SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEEE--Eec--cceeeeeccccccccccccccccccccceeeE
Confidence            4689999999999999999999988773  56788766543  223  44789999999999999999999999999999


Q ss_pred             EEECCChh-----------hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC--------------CcccchHH
Q 028305           91 VYDVNVQK-----------TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS--------------SRVVPQKK  145 (210)
Q Consensus        91 v~d~~~~~-----------s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~--------------~~~~~~~~  145 (210)
                      ++|.++..           .++....|...+......    +.|+++++||.|+....              ........
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~----~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQ----NSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQA  150 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGS----SSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhcc----CccEEEecchhhhhhhcccchHHHHhcccccCCchhHHH
Confidence            99998754           345556666666554332    78999999999973210              01112222


Q ss_pred             HHHHHH----H-----cCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          146 ALEWCA----Y-----RGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       146 ~~~~~~----~-----~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ...+..    .     ...+.+++|||++|.||+++|+.+.+.+++.+.
T Consensus       151 ~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~nl  199 (200)
T d2bcjq2         151 AREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNL  199 (200)
T ss_dssp             HHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHHhc
Confidence            222211    1     112447899999999999999999999987654

>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=99.91  E-value=1.3e-24  Score=153.24  Aligned_cols=165  Identities=16%  Similarity=0.168  Sum_probs=109.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEE
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVL   90 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   90 (210)
                      +.+||+++|++|||||||+++|.   +...+.||.+....  .+...  ...+.+||++|++.+...+..+++.++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~--~~~~~--~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~   73 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEY--DFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILF   73 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEE--EEEET--TEEEEEEEECC-------CTTSCTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEE--EEeee--eeeeeeecccceeeecccccccccccceeEE
Confidence            36899999999999999999994   44456777775543  34444  4789999999999999999999999999999


Q ss_pred             EEECCChhh----------HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC----C----------CcccchHHH
Q 028305           91 VYDVNVQKT----------FESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG----S----------SRVVPQKKA  146 (210)
Q Consensus        91 v~d~~~~~s----------~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~----~----------~~~~~~~~~  146 (210)
                      +++.++...          ++....++..+.   ......++|+++++||+|+.+.    .          ......+.+
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~---~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~  150 (200)
T d1zcba2          74 LVSSSEFDQVLMEDRQTNRLTESLNIFETIV---NNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDV  150 (200)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHH---TCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHH
T ss_pred             EEEcCCcceeeeecccchhhhHHHHHHHHHh---hChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHH
Confidence            999987533          233333333333   3333348899999999997321    0          001111222


Q ss_pred             HHHH----HHc------CCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          147 LEWC----AYR------GNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       147 ~~~~----~~~------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      .++.    ...      ..+.+++|||+++.||+++|+.+.+.+.+.+.
T Consensus       151 ~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~~l  199 (200)
T d1zcba2         151 QKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDNL  199 (200)
T ss_dssp             HHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHHhc
Confidence            2221    111      12456789999999999999999998887653

>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=1.1e-23  Score=145.04  Aligned_cols=157  Identities=20%  Similarity=0.214  Sum_probs=100.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------cccccccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------FQSLGSAFYR   83 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~~~   83 (210)
                      .|+|+|++|||||||+++|++.... ....+..+.......+....  ..+.+||++|...         +.......+.
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            6999999999999999999976543 12223333333333344433  6689999999322         1222234467


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecC
Q 028305           84 GADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSA  163 (210)
Q Consensus        84 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  163 (210)
                      .+|+++++.+.+....... ..+...+...       ++|+++|+||+|+..    +...+....+ .+.+...++++||
T Consensus        80 ~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~-------~~pviiv~NK~Dl~~----~~~~~~~~~~-~~~~~~~~i~iSA  146 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKED-ESLADFLRKS-------TVDTILVANKAENLR----EFEREVKPEL-YSLGFGEPIPVSA  146 (171)
T ss_dssp             TCSEEEEEEETTTCCCHHH-HHHHHHHHHH-------TCCEEEEEESCCSHH----HHHHHTHHHH-GGGSSCSCEECBT
T ss_pred             cCcEEEEeecccccccccc-cccccccccc-------cccccccchhhhhhh----hhhhHHHHHH-HhcCCCCeEEEec
Confidence            8999999999887554433 3344444433       679999999999863    2222222233 3344567899999


Q ss_pred             CCCCChHHHHHHHHHHHHhccc
Q 028305          164 KEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++|.|+++++++|.+.+.+...
T Consensus       147 k~g~gid~L~~~i~~~l~e~~~  168 (171)
T d1mkya1         147 EHNINLDTMLETIIKKLEEKGL  168 (171)
T ss_dssp             TTTBSHHHHHHHHHHHHHHTTC
T ss_pred             CCCCCHHHHHHHHHHhCCCCCC
Confidence            9999999999999998866543

>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=5.8e-24  Score=147.94  Aligned_cols=160  Identities=18%  Similarity=0.288  Sum_probs=111.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCC   88 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   88 (210)
                      .++..||+++|++|||||||+++|.++.+... .++.+...  ..+..++  ..+.+||+.++..+......+....+++
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGI   84 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEE
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEecc--cccccccccchhhhhhHHhhhhccccee
Confidence            35678999999999999999999998877533 33333332  2334444  5688999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc---------------
Q 028305           89 VLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR---------------  153 (210)
Q Consensus        89 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~---------------  153 (210)
                      ++++|.++...+.....++.......   ...+.|+++++||.|+...    ....++.......               
T Consensus        85 ~~~~d~~d~~~~~~~~~~~~~~~~~~---~~~~~~~li~~~K~D~~~~----~~~~~i~~~~~~~~~~~~~~~~~~~~~~  157 (186)
T d1f6ba_          85 VFLVDCADHERLLESKEELDSLMTDE---TIANVPILILGNKIDRPEA----ISEERLREMFGLYGQTTGKGSVSLKELN  157 (186)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCG---GGTTSCEEEEEECTTSTTC----CCHHHHHHHHTCTTTCCCSSCCCTTTCC
T ss_pred             eeeeeccCccchHHHHHHHHHhhccc---ccCCCceEEEEeccCcccc----CCHHHHHHHHhhcccchhhhhhhHHHhh
Confidence            99999999988887665544444321   2237899999999998653    2233333332211               


Q ss_pred             -CCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          154 -GNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       154 -~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                       ....++++||++|+|++|+|+||++.+
T Consensus       158 ~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         158 ARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             SCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             cCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence             124699999999999999999998753

>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=3.1e-23  Score=144.51  Aligned_cols=165  Identities=21%  Similarity=0.142  Sum_probs=105.5

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc----------
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ----------   75 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~----------   75 (210)
                      ++....+||+|+|.+|+|||||+|+|++.... ....+..+.......+..++  ..+.++|+||.....          
T Consensus         3 p~~~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~   80 (186)
T d1mkya2           3 PEITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKY   80 (186)
T ss_dssp             CCCCSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCS
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccc
Confidence            34445799999999999999999999976543 12223333344344555665  457888999954322          


Q ss_pred             --ccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHH---
Q 028305           76 --SLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWC---  150 (210)
Q Consensus        76 --~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~---  150 (210)
                        ......++.+|++++|+|++.+..... ..+...+...       +.|+|+|+||+|+....  ....++.....   
T Consensus        81 ~~~~~~~~~~~~dvii~v~d~~~~~~~~~-~~~~~~~~~~-------~~~~i~v~nK~D~~~~~--~~~~~~~~~~~~~~  150 (186)
T d1mkya2          81 SNYRVVDSIEKADVVVIVLDATQGITRQD-QRMAGLMERR-------GRASVVVFNKWDLVVHR--EKRYDEFTKLFREK  150 (186)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTTCCCHHH-HHHHHHHHHT-------TCEEEEEEECGGGSTTG--GGCHHHHHHHHHHH
T ss_pred             hhHHHHHHHhcCCEEEEeecccccchhhH-HHHHHHHHHc-------CCceeeeccchhhhcch--hhhhhhHHHHHHHH
Confidence              222334577999999999986543222 2333333332       67999999999986542  22223222222   


Q ss_pred             -HHcCCCcEEEecCCCCCChHHHHHHHHHHHHhc
Q 028305          151 -AYRGNIPYFETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       151 -~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                       ...+..+++++||++|.|++++++.|.+.+..+
T Consensus       151 ~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~~~  184 (186)
T d1mkya2         151 LYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASY  184 (186)
T ss_dssp             CGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             hcccCCCeEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence             223456899999999999999999997776554

>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=99.91  E-value=4.2e-24  Score=153.32  Aligned_cols=164  Identities=23%  Similarity=0.206  Sum_probs=105.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEE----------------EeCCeEEEEEEEeCCCcccccccc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKEL----------------QMDDKLVTLQIWDTAGQERFQSLG   78 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~i~D~~g~~~~~~~~   78 (210)
                      |+|+|++++|||||+++|++.........+.+........                .++.....+.++||||+..|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            9999999999999999998654321111111111000001                112233468899999999999888


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccc----------------
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVP----------------  142 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~----------------  142 (210)
                      ...+..+|++|+|+|+.+.-.-... ..+..+...       ++|+|+|+||+|+.........                
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~-------~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~  159 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQ-EALNILRMY-------RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQ  159 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHH-HHHHHHHHT-------TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHH
T ss_pred             hhcccccceEEEEEecccCcccchh-HHHHHhhcC-------CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHH
Confidence            8889999999999999875443332 222333322       7899999999998654311100                


Q ss_pred             --hHHH----HHHHHH-------------cCCCcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          143 --QKKA----LEWCAY-------------RGNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       143 --~~~~----~~~~~~-------------~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                        ....    ..+...             ....+++++||.+|.|++++++.|...+.+..++
T Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~~  222 (227)
T d1g7sa4         160 KLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLRE  222 (227)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCSG
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHHH
Confidence              0011    111110             1124689999999999999999999888766553

>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=99.90  E-value=1.2e-23  Score=143.22  Aligned_cols=149  Identities=17%  Similarity=0.196  Sum_probs=101.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc---------ccccccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ---------SLGSAFY   82 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~~   82 (210)
                      +||+++|.+|+|||||+|+|++.... ....++.+...........+  ..+.+|||||.....         ......+
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            68999999999999999999976543 23333333334344455555  668899999942211         1122235


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305           83 RGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus        83 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ..+|++++|+|.+++.......-+ ..+    .     ..++++++||.|+.+..    ..++.....  ....+++++|
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~-~~~----~-----~~~~i~~~~k~d~~~~~----~~~~~~~~~--~~~~~~~~vS  142 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKIL-ERI----K-----NKRYLVVINKVDVVEKI----NEEEIKNKL--GTDRHMVKIS  142 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHH-HHH----T-----TSSEEEEEEECSSCCCC----CHHHHHHHH--TCSTTEEEEE
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhh-hhc----c-----cccceeeeeeccccchh----hhHHHHHHh--CCCCcEEEEE
Confidence            679999999999988765543322 222    1     56899999999997642    223332222  2346899999


Q ss_pred             CCCCCChHHHHHHHHHH
Q 028305          163 AKEDCNIDEAFLCVAEI  179 (210)
Q Consensus       163 a~~~~~v~~~~~~l~~~  179 (210)
                      |++|.|+++++++|.+.
T Consensus       143 A~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         143 ALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             GGGTCCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHhc
Confidence            99999999999998763

>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=99.89  E-value=8.1e-23  Score=143.40  Aligned_cols=166  Identities=17%  Similarity=0.151  Sum_probs=110.0

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC---Ccccceeee--EEEEEEEE-------------------eCCeEEEEE
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS---QQYKATIGA--DFVTKELQ-------------------MDDKLVTLQ   64 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~--~~~~~~~~-------------------~~~~~~~~~   64 (210)
                      +++.++|+++|+.++|||||+++|++....   .....+.+.  .+......                   .......+.
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   81 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEe
Confidence            577899999999999999999999863322   111111111  11111110                   112235689


Q ss_pred             EEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchH
Q 028305           65 IWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQK  144 (210)
Q Consensus        65 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~  144 (210)
                      ++||||+.+|.......+..+|++++++|.............+..+....      ..+++++.||+|+.+........+
T Consensus        82 ~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~------~~~iiv~inK~D~~d~~~~~~~~~  155 (195)
T d1kk1a3          82 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG------QKNIIIAQNKIELVDKEKALENYR  155 (195)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT------CCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             eeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc------CccceeeeecccchhhHHHHHHHH
Confidence            99999999999888888999999999999987532222233333333321      235888999999976432333344


Q ss_pred             HHHHHHHHcC--CCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          145 KALEWCAYRG--NIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       145 ~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ....+.....  .++++++||++|+|+++|++.+.+.+
T Consensus       156 ~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         156 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            4455554432  36799999999999999999887754

>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=99.89  E-value=1e-22  Score=142.90  Aligned_cols=159  Identities=16%  Similarity=0.112  Sum_probs=94.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc--ccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc------------
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ--YKATIGADFVTKELQMDDKLVTLQIWDTAGQERF------------   74 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------------   74 (210)
                      .....+|+|+|++|||||||+|+|++......  ..++.+.+.  .......   .+.+.|+++....            
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~--~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~   94 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTL--NFYIIND---ELHFVDVPGYGFAKVSKSEREAWGR   94 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCE--EEEEETT---TEEEEECCCBCCCSSCHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeec--ccccccc---cceEEEEEeeccccccccccchhhh
Confidence            34445899999999999999999997653212  222222222  2222222   2345566652111            


Q ss_pred             -cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc
Q 028305           75 -QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR  153 (210)
Q Consensus        75 -~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~  153 (210)
                       ..........+|++++++|.+++..-.. ..++..+...       ++|+++|+||+|+.+........+..++.....
T Consensus        95 ~~~~~~~~~~~~~~vi~viD~~~~~~~~~-~~~~~~l~~~-------~~piivv~NK~D~~~~~~~~~~~~~~~~~l~~~  166 (195)
T d1svia_          95 MIETYITTREELKAVVQIVDLRHAPSNDD-VQMYEFLKYY-------GIPVIVIATKADKIPKGKWDKHAKVVRQTLNID  166 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHHT-------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCC
T ss_pred             HHhhhhccccchhhhhhhhhccccccccc-cccccccccc-------cCcceechhhccccCHHHHHHHHHHHHHHhccc
Confidence             1111233456799999999987543222 2333444332       679999999999865422222333333333334


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ...+++++||++|.|+++++++|.+.+
T Consensus       167 ~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         167 PEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            557899999999999999999998876

>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=99.89  E-value=8.4e-23  Score=142.05  Aligned_cols=151  Identities=18%  Similarity=0.152  Sum_probs=97.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------------ccccc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------------FQSLG   78 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------------~~~~~   78 (210)
                      .|+++|.+|||||||+|+|++........++++.+..  .+...+    +.+|||||...               +....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~~--~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeeccc--cccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            6899999999999999999987665444454444432  233333    67899999421               11122


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHH----------HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHH
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQ----------NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALE  148 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~----------~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~  148 (210)
                      ...++.+|++++|+|...+.......          .....+...       ++|+++|+||+|+.+.  .+.   ....
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~-------~~p~iiv~NK~D~~~~--~~~---~~~~  143 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLREL-------DIPTIVAVNKLDKIKN--VQE---VINF  143 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHT-------TCCEEEEEECGGGCSC--HHH---HHHH
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHc-------CCCEEEEEeeeehhhh--HHH---HHHH
Confidence            34456789999999987543222111          112222221       6799999999998643  111   1111


Q ss_pred             HHHHcC------CCcEEEecCCCCCChHHHHHHHHHHHHh
Q 028305          149 WCAYRG------NIPYFETSAKEDCNIDEAFLCVAEIALK  182 (210)
Q Consensus       149 ~~~~~~------~~~~~~~Sa~~~~~v~~~~~~l~~~~~~  182 (210)
                      +.....      ...++++||++|.|+++++++|.+.+.+
T Consensus       144 ~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         144 LAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             HHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            222221      1348999999999999999999988765

>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=2.1e-23  Score=145.34  Aligned_cols=162  Identities=17%  Similarity=0.075  Sum_probs=100.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccc----c---ccccccCCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQS----L---GSAFYRGAD   86 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----~---~~~~~~~~d   86 (210)
                      +|+|+|++|||||||+|+|.+........++.+.+.......+.+. ..+.+|||||..+...    .   ....+..++
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            6999999999999999999876644333333333333333333221 3588999999532111    1   122345688


Q ss_pred             EEEEEEECCChhhHHHHH--HHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-CCCcEEEecC
Q 028305           87 CCVLVYDVNVQKTFESLQ--NWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-GNIPYFETSA  163 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~--~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa  163 (210)
                      .++++++...........  .+....... ......++|+++|+||+|+.+.      .+....+.... ...+++++||
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~kp~ivv~NK~Dl~~~------~~~~~~~~~~~~~~~~v~~iSA  154 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSE-YNLRLTERPQIIVANKMDMPEA------AENLEAFKEKLTDDYPVFPISA  154 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHH-SCSSTTTSCBCBEEECTTSTTH------HHHHHHHHHHCCSCCCBCCCSS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccch-hhhhccCCcchhhccccchHhH------HHHHHHHHHHhccCCcEEEEEC
Confidence            888888876543322222  111122122 2223336799999999998753      12223333333 2478999999


Q ss_pred             CCCCChHHHHHHHHHHHHhc
Q 028305          164 KEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       164 ~~~~~v~~~~~~l~~~~~~~  183 (210)
                      ++|.|++++++.|.+.+.+.
T Consensus       155 ~~g~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         155 VTREGLRELLFEVANQLENT  174 (185)
T ss_dssp             CCSSTTHHHHHHHHHHHTSC
T ss_pred             CCCCCHHHHHHHHHHhhhhC
Confidence            99999999999999887543

>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=99.88  E-value=9.7e-22  Score=138.83  Aligned_cols=166  Identities=17%  Similarity=0.134  Sum_probs=105.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-----ccceeeeEEEEEEEEe------------------------CCe
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-----YKATIGADFVTKELQM------------------------DDK   59 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-----~~~~~~~~~~~~~~~~------------------------~~~   59 (210)
                      .++.++|+++|+.++|||||+++|++......     ................                        ...
T Consensus         5 ~~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (205)
T d2qn6a3           5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKF   84 (205)
T ss_dssp             CCCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEE
T ss_pred             CCCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccc
Confidence            45678999999999999999999985322100     0000000000011000                        111


Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR  139 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~  139 (210)
                      ...+.++|+||+.+|.......+..+|++|+|+|..+.-.-......+..+... .     -.|+|+++||+|+.+....
T Consensus        85 ~r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~-----i~~iIV~vNK~Dl~~~~~~  158 (205)
T d2qn6a3          85 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-G-----VKNLIIVQNKVDVVSKEEA  158 (205)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-T-----CCCEEEEEECGGGSCHHHH
T ss_pred             eEEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-C-----CceeeeccccCCCccchHH
Confidence            246889999999999888888889999999999998752111112222222222 1     2389999999999764322


Q ss_pred             ccchHHHHHHHHHcC--CCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          140 VVPQKKALEWCAYRG--NIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       140 ~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      .........+.....  .++++++||++|.|++++++.|.+.+
T Consensus       159 ~~~~~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         159 LSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            333333444443332  46799999999999999999888753

>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=1.8e-21  Score=137.80  Aligned_cols=121  Identities=17%  Similarity=0.237  Sum_probs=86.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccc-ccccccccCCcEEEEEE
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQ-SLGSAFYRGADCCVLVY   92 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~vi~v~   92 (210)
                      +|+++|++|||||||+++|+++.+... .++.+.+...... .+...+.+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            699999999999999999999887654 3455444433322 24455789999999998875 45577788999999999


Q ss_pred             ECCChhhH-HHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           93 DVNVQKTF-ESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        93 d~~~~~s~-~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      |.++..++ .....++..+...... ...++|+++|+||+|+....
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~-~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMA-LKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHT-STTCCEEEEEEECTTSTTCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHH-hhcCCcEEEEEECcccCCCC
Confidence            99987653 4444444443322111 11267999999999997653

>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=9.1e-22  Score=137.33  Aligned_cols=159  Identities=16%  Similarity=0.053  Sum_probs=107.9

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC----------------cCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN----------------KFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF   74 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   74 (210)
                      +.++|+++|+.++|||||+++|+..                ....+...+.+++.....+..  ....+.++||||+.+|
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~--~~~~~~~iDtPGh~~f   79 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST--AARHYAHTDCPGHADY   79 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC--SSCEEEEEECSSHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEe--ceeeEEeecCcchHHH
Confidence            5689999999999999999999741                111222233444433333333  3466888999999999


Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCc-ccchHHHHHHHHHc
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSR-VVPQKKALEWCAYR  153 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~-~~~~~~~~~~~~~~  153 (210)
                      .......+..+|++++|+|..+...-+.. ..+..+....      ..|+|+++||+|+.+...+ +....+++.+....
T Consensus        80 ~~~~~~~~~~aD~allVVda~~G~~~QT~-~~~~~a~~~~------~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~  152 (196)
T d1d2ea3          80 VKNMITGTAPLDGCILVVAANDGPMPQTR-EHLLLARQIG------VEHVVVYVNKADAVQDSEMVELVELEIRELLTEF  152 (196)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTTCSCHHHH-HHHHHHHHTT------CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcCeEEEEEEcCCCCchhHH-HHHHHHHHhc------CCcEEEEEecccccccHHHHHHHHHHHHHHHHHh
Confidence            98888889999999999999976443332 2233333321      3479999999998753211 22334566666555


Q ss_pred             CC----CcEEEecCCCC----------CChHHHHHHHHH
Q 028305          154 GN----IPYFETSAKED----------CNIDEAFLCVAE  178 (210)
Q Consensus       154 ~~----~~~~~~Sa~~~----------~~v~~~~~~l~~  178 (210)
                      +.    .+++++||++|          .++.++++.+.+
T Consensus       153 ~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         153 GYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             TSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             CCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence            42    67999999988          477777766654

>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=2.8e-22  Score=143.19  Aligned_cols=169  Identities=18%  Similarity=0.147  Sum_probs=115.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccccccccccccCCcEEE
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCV   89 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   89 (210)
                      +..+||+++|+.|||||||++++..+.+    .||.+...  ..+..++  +.+.+||++|+..++..+..++..+++++
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~--~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEE--EEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEE--EEEEECc--EEEEEEecCccceeccchhhhcccccceE
Confidence            4578999999999999999999986654    35565443  3344554  78999999999999999999999999999


Q ss_pred             EEEECCChhh-------HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC------C------------------
Q 028305           90 LVYDVNVQKT-------FESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS------S------------------  138 (210)
Q Consensus        90 ~v~d~~~~~s-------~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~------~------------------  138 (210)
                      +++|.++...       ...+......+...+......++|++|++||+|+.+..      .                  
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~  155 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDAT  155 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCC
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCccccc
Confidence            9999986431       11122222333333333333488999999999984320      0                  


Q ss_pred             ----cccchHHHH-----HHHHHc-------CCCcEEEecCCCCCChHHHHHHHHHHHHhcccc
Q 028305          139 ----RVVPQKKAL-----EWCAYR-------GNIPYFETSAKEDCNIDEAFLCVAEIALKNEHK  186 (210)
Q Consensus       139 ----~~~~~~~~~-----~~~~~~-------~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~~  186 (210)
                          ......++.     .+.+..       ..+...+|||.++.+++.+|+.+.+.+++.+.+
T Consensus       156 ~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~~l~  219 (221)
T d1azta2         156 PEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHLR  219 (221)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHHHHT
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHHHhh
Confidence                000111222     222111       113457899999999999999999988887654

>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=99.84  E-value=1.7e-20  Score=129.69  Aligned_cols=162  Identities=15%  Similarity=0.091  Sum_probs=105.7

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCCc-ccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc---------ccccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQ-YKATIGADFVTKELQMDDKLVTLQIWDTAGQER---------FQSLG   78 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~   78 (210)
                      +...-.|+|+|.+|+|||||+|+|++...... ..+++...........+.  ..+..+|++|...         .....
T Consensus         2 ~~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (179)
T d1egaa1           2 KSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAA   79 (179)
T ss_dssp             CCEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCT
T ss_pred             CccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhcc
Confidence            34566799999999999999999998765422 222333333333334444  3466788887321         11222


Q ss_pred             cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcE
Q 028305           79 SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPY  158 (210)
Q Consensus        79 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (210)
                      ......+++++++.|.......  ...+...+...       ..|.++|+||.|....  ...............+..++
T Consensus        80 ~~~~~~~~~~l~~~d~~~~~~~--~~~~~~~l~~~-------~~~~i~v~~k~d~~~~--~~~~~~~~~~~~~~~~~~~~  148 (179)
T d1egaa1          80 SSSIGDVELVIFVVEGTRWTPD--DEMVLNKLREG-------KAPVILAVNKVDNVQE--KADLLPHLQFLASQMNFLDI  148 (179)
T ss_dssp             TSCCCCEEEEEEEEETTCCCHH--HHHHHHHHHSS-------SSCEEEEEESTTTCCC--HHHHHHHHHHHHTTSCCSEE
T ss_pred             ccchhhcceeEEEEecCccchh--HHHHHHHhhhc-------cCceeeeeeeeeccch--hhhhhhHhhhhhhhcCCCCE
Confidence            3334567888888887653322  22233333221       5689999999998764  34445556666677777889


Q ss_pred             EEecCCCCCChHHHHHHHHHHHHhc
Q 028305          159 FETSAKEDCNIDEAFLCVAEIALKN  183 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~~~~~~~  183 (210)
                      +++||++|.|++++++.|.+.+.+.
T Consensus       149 ~~vSA~~g~gi~~L~~~i~~~lpe~  173 (179)
T d1egaa1         149 VPISAETGLNVDTIAAIVRKHLPEA  173 (179)
T ss_dssp             EECCTTTTTTHHHHHHHHHTTCCBC
T ss_pred             EEEeCcCCCCHHHHHHHHHHhCCCC
Confidence            9999999999999999998876443

>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=99.83  E-value=4.9e-20  Score=130.83  Aligned_cols=156  Identities=16%  Similarity=0.199  Sum_probs=103.8

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCc--CC-------------------------------CcccceeeeEEEEE
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNK--FS-------------------------------QQYKATIGADFVTK   52 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~-------------------------------~~~~~~~~~~~~~~   52 (210)
                      +++++..++|+++|+.++|||||+.+|+...  ..                               .+...+.+.+....
T Consensus         3 ~~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~   82 (222)
T d1zunb3           3 QHERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYR   82 (222)
T ss_dssp             STTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEE
T ss_pred             ccccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEE
Confidence            3567789999999999999999999996321  10                               00011112222222


Q ss_pred             EEEeCCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecC
Q 028305           53 ELQMDDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKI  131 (210)
Q Consensus        53 ~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~  131 (210)
                      .+...+  ..+.++|+||+.+|.......+..+|++|+|+|+.....-.....+ ..+...       +++ +|++.||+
T Consensus        83 ~~~~~~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~-~~~~~~-------gv~~iiv~vNK~  152 (222)
T d1zunb3          83 YFSTAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHS-YIASLL-------GIKHIVVAINKM  152 (222)
T ss_dssp             EEECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHH-HHHHHT-------TCCEEEEEEECT
T ss_pred             EEeccc--eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHH-HHHHHc-------CCCEEEEEEEcc
Confidence            333333  5688999999999999998889999999999999876443333332 222221       444 88999999


Q ss_pred             CCCCCCCc--ccchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          132 DTDGGSSR--VVPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       132 D~~~~~~~--~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      |+.+....  ....+++..++...+    .++++++||.+|.|+.+
T Consensus       153 D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         153 DLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             TTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             ccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            99875321  233345556666554    24689999999999854

>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=99.82  E-value=4.3e-20  Score=129.82  Aligned_cols=144  Identities=15%  Similarity=0.113  Sum_probs=99.0

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCc--------CC---------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNK--------FS---------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~--------~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ++++|+++|++++|||||+++|+...        ..         .+...+.+++.....+..++  .++.++||||+.+
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~--~~i~iiDtPGh~d   79 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK--RHYSHVDCPGHAD   79 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS--CEEEEEECCCSGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC--eEEEEEeCCCchh
Confidence            57999999999999999999996210        00         11112444555555555555  5678899999999


Q ss_pred             ccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC-cccchHHHHHHHH
Q 028305           74 FQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS-RVVPQKKALEWCA  151 (210)
Q Consensus        74 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~-~~~~~~~~~~~~~  151 (210)
                      |.......+..+|++|+|+|+.+.........| ..+...       ++| +++++||+|+.+... .....+++..+..
T Consensus        80 f~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~~-------gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~  151 (204)
T d2c78a3          80 YIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQV-------GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLN  151 (204)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHHT-------TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHHc-------CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987665554444 333222       555 778899999865321 1233445555555


Q ss_pred             HcC----CCcEEEecCC
Q 028305          152 YRG----NIPYFETSAK  164 (210)
Q Consensus       152 ~~~----~~~~~~~Sa~  164 (210)
                      ..+    ..++++.|+.
T Consensus       152 ~~~~~~~~i~~i~~sa~  168 (204)
T d2c78a3         152 QYEFPGDEVPVIRGSAL  168 (204)
T ss_dssp             HTTSCTTTSCEEECCHH
T ss_pred             hcCCCcccceeeeeech
Confidence            443    3668888875

>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=99.77  E-value=4.4e-18  Score=123.68  Aligned_cols=118  Identities=20%  Similarity=0.255  Sum_probs=84.7

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCC------------------CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFS------------------QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ....+|+++|+.++|||||+.+++...-.                  .+.....++......+..++  .+++++||||+
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~   81 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGH   81 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSS
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCch
Confidence            34568999999999999999998632111                  01111222233334444555  66899999999


Q ss_pred             ccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           72 ERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      .+|.......++.+|++|+|+|..+.-......-| .....+       ++|.++++||+|.....
T Consensus        82 ~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~~~-------~lP~i~fINKmDr~~ad  139 (276)
T d2bv3a2          82 VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAEKY-------KVPRIAFANKMDKTGAD  139 (276)
T ss_dssp             SSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHHTT-------TCCEEEEEECTTSTTCC
T ss_pred             hhhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHHHc-------CCCEEEEEecccccccc
Confidence            99999999999999999999999987665554444 343332       88999999999986643

>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=1.3e-18  Score=120.75  Aligned_cols=166  Identities=14%  Similarity=0.046  Sum_probs=87.4

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceee-eEEEEEEEEeCCeEEEEEEEeCCCccccccc-------
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIG-ADFVTKELQMDDKLVTLQIWDTAGQERFQSL-------   77 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------   77 (210)
                      +.+++..++|+++|.+|+|||||+|+|.+...........+ ...........+ ...+..++.++.......       
T Consensus        10 ~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   88 (188)
T d1puia_          10 HLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADG-KRLVDLPGYGYAEVPEEMKRKWQRA   88 (188)
T ss_dssp             GSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETT-EEEEECCCCC------CCHHHHHHH
T ss_pred             HCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccc-cceeeeecccccchhhhhhhhhhhh
Confidence            34467789999999999999999999987765422222221 111112222222 122222222221111111       


Q ss_pred             c---cccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-
Q 028305           78 G---SAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-  153 (210)
Q Consensus        78 ~---~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-  153 (210)
                      .   .......+.++.+.+......... ..+...+...       ..++++++||+|+..........+...+..... 
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-------~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~  160 (188)
T d1puia_          89 LGEYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVDS-------NIAVLVLLTKADKLASGARKAQLNMVREAVLAFN  160 (188)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHHT-------TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGC
T ss_pred             hhhhhhhhhheeEEEEeecccccchhHH-HHHHHHhhhc-------cccccchhhhhhccCHHHHHHHHHHHHHHHHhhC
Confidence            1   111233455666666655433322 2333333332       568999999999876432233333333333333 


Q ss_pred             CCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          154 GNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       154 ~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      +..+++++||++|.|++++++.|.+-+
T Consensus       161 ~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         161 GDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             SCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            346799999999999999999987643

>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=99.77  E-value=1.2e-19  Score=128.33  Aligned_cols=121  Identities=15%  Similarity=0.164  Sum_probs=81.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccccc----ccCCc
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGSAF----YRGAD   86 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~----~~~~d   86 (210)
                      +..+|+++|++|||||||+|+|+++.+.+    +++.+.....+  +.....+.+||+||++.+......+    ...++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAA--DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEET--TGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEEE--EeCCeEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            34589999999999999999999877642    33333333333  3334568899999988765554433    34568


Q ss_pred             EEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCC
Q 028305           87 CCVLVYDVNV-QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGS  137 (210)
Q Consensus        87 ~vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~  137 (210)
                      .+++++|..+ ..++.....|+..+..........++|+++|+||+|+.+..
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            8888888764 55566665555444322222223388999999999997653

>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=99.76  E-value=1.2e-18  Score=124.97  Aligned_cols=153  Identities=16%  Similarity=0.216  Sum_probs=104.5

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc--CC-----------------------------CcccceeeeEEEEEEEEeC
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK--FS-----------------------------QQYKATIGADFVTKELQMD   57 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~   57 (210)
                      +++.++|+++|+.++|||||+.+|+...  ..                             .+...+.+++.....+...
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~   82 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   82 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECS
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccC
Confidence            4567899999999999999999986211  00                             1122344444444555555


Q ss_pred             CeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhh-------HHHHHHHHHHHHHhcCCCCCCCCC-EEEEEe
Q 028305           58 DKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKT-------FESLQNWREEFLKQADPGEHEACP-FVLLGN  129 (210)
Q Consensus        58 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s-------~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~  129 (210)
                      +  .++.++|||||.+|...+...+..+|++|+|+|......       .+....| ......       ++| +|+++|
T Consensus        83 ~--~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~-------gv~~iiv~iN  152 (239)
T d1f60a3          83 K--YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTL-------GVRQLIVAVN  152 (239)
T ss_dssp             S--EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHT-------TCCEEEEEEE
T ss_pred             C--EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHc-------CCCeEEEEEE
Confidence            5  678999999999999999999999999999999986421       1122222 222221       555 888999


Q ss_pred             cCCCCCCCC--cccchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          130 KIDTDGGSS--RVVPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       130 K~D~~~~~~--~~~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      |+|+.+...  .....+++..++...+    .++++++|+.+|.|+.+
T Consensus       153 KmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         153 KMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             CGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            999876532  1233445566665555    26689999999998754

>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=99.75  E-value=3.4e-18  Score=123.14  Aligned_cols=158  Identities=13%  Similarity=0.107  Sum_probs=86.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhhCcCC-------------------------------CcccceeeeEEEEEEEEe
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-------------------------------QQYKATIGADFVTKELQM   56 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~   56 (210)
                      ..++.++|+++|+.++|||||+.+|+...-.                               .....+.+++.....+..
T Consensus        20 ~~k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~   99 (245)
T d1r5ba3          20 YGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET   99 (245)
T ss_dssp             SCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC
T ss_pred             cCCCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccc
Confidence            3456889999999999999999999521110                               001111111221222223


Q ss_pred             CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHH------HHHHHHHHHHHhcCCCCCCCC-CEEEEEe
Q 028305           57 DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFE------SLQNWREEFLKQADPGEHEAC-PFVLLGN  129 (210)
Q Consensus        57 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~------~~~~~~~~l~~~~~~~~~~~~-p~ilv~~  129 (210)
                      .+  ..+.+.||||+..|..........+|++++|+|+.....-.      .....+..+...       ++ ++++++|
T Consensus       100 ~~--~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~-------~i~~iiv~iN  170 (245)
T d1r5ba3         100 EH--RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ-------GINHLVVVIN  170 (245)
T ss_dssp             SS--EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT-------TCSSEEEEEE
T ss_pred             cc--ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc-------CCCeEEEEEE
Confidence            33  56899999999999999999999999999999998742110      111222222221       44 4889999


Q ss_pred             cCCCCCCCCccc----chHHHHHHHHHcC------CCcEEEecCCCCCChHHHHH
Q 028305          130 KIDTDGGSSRVV----PQKKALEWCAYRG------NIPYFETSAKEDCNIDEAFL  174 (210)
Q Consensus       130 K~D~~~~~~~~~----~~~~~~~~~~~~~------~~~~~~~Sa~~~~~v~~~~~  174 (210)
                      |+|+......+.    ..+++..+.....      .++++++||++|+|+.++++
T Consensus       171 KmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         171 KMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             CTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             cCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            999975432222    1223333333321      25799999999999977543

>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=3.9e-17  Score=118.38  Aligned_cols=112  Identities=16%  Similarity=0.220  Sum_probs=82.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCC------------------cccceeeeEEEEEEEEeCCeEEEEEEEeCCCcccc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQ------------------QYKATIGADFVTKELQMDDKLVTLQIWDTAGQERF   74 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   74 (210)
                      .+|+++|+.++|||||+.+|+...-..                  +.....++......+..++  .+++++||||+.+|
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~--~~~n~iDtPGh~dF   80 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG--HRVFLLDAPGYGDF   80 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT--EEEEEEECCCSGGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc--cceeEEccCchhhh
Confidence            579999999999999999986221110                  0112223344445555656  56889999999999


Q ss_pred             cccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           75 QSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        75 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      .......++.+|++|+|+|..+.-.......|. .....       ++|.++++||+|..
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~-~~~~~-------~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAWT-VAERL-------GLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH-HHHHT-------TCCEEEEEECGGGC
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHHH-hhhhc-------cccccccccccccc
Confidence            999999999999999999999876655555553 33332       78999999999974

>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=99.73  E-value=1e-17  Score=119.42  Aligned_cols=154  Identities=17%  Similarity=0.185  Sum_probs=95.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcC--C-----------------------------CcccceeeeEEEEEEEEeCCe
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKF--S-----------------------------QQYKATIGADFVTKELQMDDK   59 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~   59 (210)
                      +.++|+++|+.++|||||+.+|+...-  .                             .+...+.+.......+..  .
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~--~   79 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET--K   79 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC--S
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEec--C
Confidence            478999999999999999998863110  0                             111122222332233333  3


Q ss_pred             EEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHH---HHHHHH--HHHHhcCCCCCCCCCEEEEEecCCCC
Q 028305           60 LVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFES---LQNWRE--EFLKQADPGEHEACPFVLLGNKIDTD  134 (210)
Q Consensus        60 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~---~~~~~~--~l~~~~~~~~~~~~p~ilv~~K~D~~  134 (210)
                      ...+.++|||||.+|.......++.+|++|+|+|+.+...-..   ..+...  .+.....     ..++|+++||+|+.
T Consensus        80 ~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~-----~~~iIv~iNK~D~~  154 (224)
T d1jnya3          80 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMG-----LDQLIVAVNKMDLT  154 (224)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTT-----CTTCEEEEECGGGS
T ss_pred             CceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhC-----CCceEEEEEcccCC
Confidence            4679999999999999999999999999999999987521111   011111  1111111     33689999999987


Q ss_pred             CCCCcc----cchHHHHHHHHHcC----CCcEEEecCCCCCChHH
Q 028305          135 GGSSRV----VPQKKALEWCAYRG----NIPYFETSAKEDCNIDE  171 (210)
Q Consensus       135 ~~~~~~----~~~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~  171 (210)
                      ......    ....++..+....+    ..+++++||..|.|+.+
T Consensus       155 ~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         155 EPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             SSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             CccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            533222    22234444444443    35689999999999854

>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=99.63  E-value=8.3e-16  Score=118.13  Aligned_cols=163  Identities=14%  Similarity=0.145  Sum_probs=92.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcCCCccc-----ceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccc-----
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKFSQQYK-----ATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGS-----   79 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~-----   79 (210)
                      ..+++|+|+|.+|+|||||+|+|++........     ..++.+...  +.. .....+.+|||||-........     
T Consensus        54 ~~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~--~~~-~~~~~~~l~DtPG~~~~~~~~~~~~~~  130 (400)
T d1tq4a_          54 SSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP--YKH-PNIPNVVFWDLPGIGSTNFPPDTYLEK  130 (400)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEE--EEC-SSCTTEEEEECCCGGGSSCCHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeee--eec-cCCCeEEEEeCCCcccccccHHHHHHH
Confidence            357999999999999999999999754321111     111122211  111 1122478999999554332222     


Q ss_pred             ccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC---------CCcccchHHH----
Q 028305           80 AFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG---------SSRVVPQKKA----  146 (210)
Q Consensus        80 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~---------~~~~~~~~~~----  146 (210)
                      ..+..+|.++++.|..-...   -......+...       +.|+++|.||+|....         ...+...+++    
T Consensus       131 ~~~~~~d~~l~~~~~~~~~~---d~~l~~~l~~~-------~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~  200 (400)
T d1tq4a_         131 MKFYEYDFFIIISATRFKKN---DIDIAKAISMM-------KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNC  200 (400)
T ss_dssp             TTGGGCSEEEEEESSCCCHH---HHHHHHHHHHT-------TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             hhhhcceEEEEecCCCCCHH---HHHHHHHHHHc-------CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHH
Confidence            22456788888877543222   12333444432       6799999999996210         0011111222    


Q ss_pred             HHHHHHcC--CCcEEEecCCC--CCChHHHHHHHHHHHHhccc
Q 028305          147 LEWCAYRG--NIPYFETSAKE--DCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       147 ~~~~~~~~--~~~~~~~Sa~~--~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ....+..+  ..+++.+|+.+  ..++.++.+.+.+.+.+..+
T Consensus       201 ~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~~  243 (400)
T d1tq4a_         201 VNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  243 (400)
T ss_dssp             HHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             HHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHHHH
Confidence            22223222  34588888754  45888888888877765544

>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=99.61  E-value=5e-16  Score=116.09  Aligned_cols=121  Identities=20%  Similarity=0.205  Sum_probs=83.1

Q ss_pred             ccccceE-EEEEEcCCCCcHHHHHHHHhhCc--CC--------------CcccceeeeEEEEEEEEe-------------
Q 028305            7 MKRRNLL-KVIVLGDSGVGKTSLMNQYVYNK--FS--------------QQYKATIGADFVTKELQM-------------   56 (210)
Q Consensus         7 ~~~~~~~-~i~v~G~~~~GKSsli~~l~~~~--~~--------------~~~~~~~~~~~~~~~~~~-------------   56 (210)
                      |.+...+ +|+|+|+.++|||||+.+|+...  ..              .+...+.++.........             
T Consensus        11 m~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~   90 (341)
T d1n0ua2          11 MDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQK   90 (341)
T ss_dssp             HHCGGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSC
T ss_pred             hcCcccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhcc
Confidence            3344444 69999999999999999997211  11              001111111111111111             


Q ss_pred             -CCeEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCC
Q 028305           57 -DDKLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDG  135 (210)
Q Consensus        57 -~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~  135 (210)
                       ++..+.++++||||+.+|.......++.+|++++|+|+...-......-|......        ++|+++++||+|...
T Consensus        91 ~~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~--------~~p~i~viNKiDr~~  162 (341)
T d1n0ua2          91 TDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGE--------RIKPVVVINKVDRAL  162 (341)
T ss_dssp             CCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHT--------TCEEEEEEECHHHHH
T ss_pred             ccccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHc--------CCCeEEEEECccccc
Confidence             33467799999999999999999999999999999999987666665555444432        789999999999743

>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=99.56  E-value=3.2e-14  Score=103.07  Aligned_cols=124  Identities=17%  Similarity=0.123  Sum_probs=76.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCccccccccc-------c
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQERFQSLGS-------A   80 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~-------~   80 (210)
                      ....++|+++|.+|+|||||+|.+++.... ....+..+..........++  ..+.++||||..+......       .
T Consensus        29 ~~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~  106 (257)
T d1h65a_          29 DVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKS  106 (257)
T ss_dssp             TCCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHH
Confidence            457899999999999999999999987643 22233444444455556666  5689999999543221111       1


Q ss_pred             --cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305           81 --FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus        81 --~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                        .....|++++|++++...--......+..+...+...-  -.++++|.||+|....
T Consensus       107 ~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~--~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         107 FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGI--WNKAIVALTHAQFSPP  162 (257)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGG--GGGEEEEEECCSCCCG
T ss_pred             HHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhh--hhCEEEEEECcccCCc
Confidence              12346899999988764211112233333333322100  2379999999998753

>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=99.54  E-value=3.7e-15  Score=107.26  Aligned_cols=113  Identities=12%  Similarity=-0.035  Sum_probs=67.5

Q ss_pred             EEEEEeCCCccccccccccc-----ccCCcEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           62 TLQIWDTAGQERFQSLGSAF-----YRGADCCVLVYDVNV---QKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        62 ~~~i~D~~g~~~~~~~~~~~-----~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      .+.+.|+||+..+.......     ....+.++++.|...   +..+..............      ..|.++|+||+|+
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~------~~~~ivvinK~D~  169 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRL------GATTIPALNKVDL  169 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHH------TSCEEEEECCGGG
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHh------CCCceeeeecccc
Confidence            48888999987654433222     123568899999754   333322221111111111      6799999999999


Q ss_pred             CCCCCccc-------------------------chHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHH
Q 028305          134 DGGSSRVV-------------------------PQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIA  180 (210)
Q Consensus       134 ~~~~~~~~-------------------------~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~  180 (210)
                      ........                         ............+.++++++||++|+|+++++..|.+.+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         170 LSEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             CCHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            76421100                         000011111223568899999999999999999988753

>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=99.44  E-value=7.8e-14  Score=103.83  Aligned_cols=89  Identities=15%  Similarity=0.146  Sum_probs=53.3

Q ss_pred             cccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc------C
Q 028305           81 FYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR------G  154 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~------~  154 (210)
                      +...+|.+++|......+....+..   -+..         ++-++|+||+|+...........+........      .
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~---gi~e---------~aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w  231 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKK---GLME---------VADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEW  231 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCH---HHHH---------HCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTB
T ss_pred             hhhccceEEEEecCCCchhhhhhch---hhhc---------cccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCC
Confidence            4566899999987654433333222   2332         25689999999876422222223333332222      1


Q ss_pred             CCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          155 NIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       155 ~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ..+++.+||.+|.|++++++.|.+...
T Consensus       232 ~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         232 QPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             CCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             cceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999977543

>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=99.40  E-value=6e-13  Score=98.89  Aligned_cols=156  Identities=13%  Similarity=0.129  Sum_probs=87.6

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCc----CC-------Ccccc---------------eeeeEEEEEEEEeCC----
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNK----FS-------QQYKA---------------TIGADFVTKELQMDD----   58 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~----~~-------~~~~~---------------~~~~~~~~~~~~~~~----   58 (210)
                      ....++|.|.|+||+|||||+.+|...-    ..       +....               ......+.......+    
T Consensus        48 ~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~~~~~~~~~ir~~~~~~~~gg  127 (323)
T d2qm8a1          48 TGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGG  127 (323)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHH
T ss_pred             cCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHHHhcccceeeccccccccccc
Confidence            4568999999999999999999987321    00       00000               000011111111111    


Q ss_pred             --------------eEEEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE
Q 028305           59 --------------KLVTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF  124 (210)
Q Consensus        59 --------------~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~  124 (210)
                                    ..+.+.++.|.|-..   ........+|.+++|......+....+.   .-+..         ++-
T Consensus       128 ~~~~~~~~i~~~~~~g~d~iiiETVG~gq---~e~~~~~~~D~~v~v~~p~~GD~iQ~~k---~gilE---------~aD  192 (323)
T d2qm8a1         128 VAAKTRETMLLCEAAGFDVILVETVGVGQ---SETAVADLTDFFLVLMLPGAGDELQGIK---KGIFE---------LAD  192 (323)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEECSSSS---CHHHHHTTSSEEEEEECSCC------CC---TTHHH---------HCS
T ss_pred             hhHHHHHHHHhhccCCCCeEEEeehhhhh---hhhhhhcccceEEEEeeccchhhhhhhh---hhHhh---------hhh
Confidence                          014567777777432   1122345589999999987654433322   22222         256


Q ss_pred             EEEEecCCCCCCCCcccchHHHHHHHHH---------cCCCcEEEecCCCCCChHHHHHHHHHHHH
Q 028305          125 VLLGNKIDTDGGSSRVVPQKKALEWCAY---------RGNIPYFETSAKEDCNIDEAFLCVAEIAL  181 (210)
Q Consensus       125 ilv~~K~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~  181 (210)
                      ++|+||+|+.+..  .........+...         .+..+++.+||.+|.|+++++++|.+...
T Consensus       193 i~vvNKaD~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         193 MIAVNKADDGDGE--RRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             EEEEECCSTTCCH--HHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             eeeEeccccccch--HHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHH
Confidence            9999999987642  1111111111111         12367999999999999999999977654

>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=99.40  E-value=7.7e-13  Score=97.66  Aligned_cols=87  Identities=18%  Similarity=0.172  Sum_probs=59.6

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhCcC-CCcccceeeeEEEEEEEEeCC---------------eEEEEEEEeCCCccc
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYNKF-SQQYKATIGADFVTKELQMDD---------------KLVTLQIWDTAGQER   73 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~i~D~~g~~~   73 (210)
                      ...++|.++|.|+||||||.+++++... .....|+++++.....+.+..               ....+.+.|.||...
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~   87 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   87 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccc
Confidence            3568999999999999999999997653 233445555555444444432               124688899998321


Q ss_pred             -------ccccccccccCCcEEEEEEECCC
Q 028305           74 -------FQSLGSAFYRGADCCVLVYDVNV   96 (210)
Q Consensus        74 -------~~~~~~~~~~~~d~vi~v~d~~~   96 (210)
                             ........++.+|++++|+|+.+
T Consensus        88 gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          88 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccccHHHHHHHhhccceeEEEEeccC
Confidence                   12223444688999999998854

>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=99.29  E-value=2.4e-11  Score=88.76  Aligned_cols=84  Identities=21%  Similarity=0.121  Sum_probs=54.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEEeCCe---------------EEEEEEEeCCCccc---
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQMDDK---------------LVTLQIWDTAGQER---   73 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~---   73 (210)
                      .++|.+||.|+||||||++++++........|+++++.....+.+...               ...+.++|.||--.   
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            469999999999999999999977655444455555444444444322               12588999999321   


Q ss_pred             ----ccccccccccCCcEEEEEEECC
Q 028305           74 ----FQSLGSAFYRGADCCVLVYDVN   95 (210)
Q Consensus        74 ----~~~~~~~~~~~~d~vi~v~d~~   95 (210)
                          ....-...++.+|++++|+|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence                2223344578899999999863

>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=99.15  E-value=4.1e-11  Score=89.22  Aligned_cols=84  Identities=15%  Similarity=0.099  Sum_probs=46.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcCCCcccceeeeEEEEEEEE----------------------eCCeEEEEEEEeCCC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKFSQQYKATIGADFVTKELQ----------------------MDDKLVTLQIWDTAG   70 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~----------------------~~~~~~~~~i~D~~g   70 (210)
                      ++|+++|.|+||||||+|+|++........|+++.+.......                      .......+.++|+||
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            4799999999999999999997766555555554443222111                      012336799999999


Q ss_pred             ccc-------ccccccccccCCcEEEEEEECCC
Q 028305           71 QER-------FQSLGSAFYRGADCCVLVYDVNV   96 (210)
Q Consensus        71 ~~~-------~~~~~~~~~~~~d~vi~v~d~~~   96 (210)
                      --.       ........++.+|++++|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            322       22223344678999999999863

>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=99.09  E-value=4.6e-10  Score=82.67  Aligned_cols=119  Identities=17%  Similarity=0.233  Sum_probs=69.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEe----------CC---------------------
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQM----------DD---------------------   58 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~----------~~---------------------   58 (210)
                      ...+|+|+|..++|||||+|+|++..+. ....+++...........          .+                     
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhh
Confidence            3558999999999999999999988863 223232211111110000          00                     


Q ss_pred             ------------------eEEEEEEEeCCCcccc-------------cccccccccCCcE-EEEEEECCChhhHHHHHHH
Q 028305           59 ------------------KLVTLQIWDTAGQERF-------------QSLGSAFYRGADC-CVLVYDVNVQKTFESLQNW  106 (210)
Q Consensus        59 ------------------~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d~-vi~v~d~~~~~s~~~~~~~  106 (210)
                                        ....+.++|+||....             ..+...|+...+. +++|.+............+
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~  184 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  184 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHH
Confidence                              0113789999994321             1333455666764 5556666554444444444


Q ss_pred             HHHHHHhcCCCCCCCCCEEEEEecCCCCCC
Q 028305          107 REEFLKQADPGEHEACPFVLLGNKIDTDGG  136 (210)
Q Consensus       107 ~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~  136 (210)
                      ...+...       ..++++|.||+|....
T Consensus       185 ~~~~~~~-------~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         185 AKEVDPQ-------GQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHCTT-------CSSEEEEEECGGGSCT
T ss_pred             HHHhCcC-------CCceeeEEeccccccc
Confidence            4444222       4589999999998654

>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=99.03  E-value=3.5e-10  Score=83.61  Aligned_cols=28  Identities=29%  Similarity=0.567  Sum_probs=24.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhCcCC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYNKFS   38 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~~~~   38 (210)
                      ...+|+|+|..++|||||+|+|++..+.
T Consensus        23 ~lP~ivVvG~~ssGKSSliNaLlG~~~l   50 (306)
T d1jwyb_          23 DLPQIVVVGSQSSGKSSVLENIVGRDFL   50 (306)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCCC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHhCCCCC
Confidence            3458999999999999999999988763

>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=98.65  E-value=1.5e-08  Score=73.34  Aligned_cols=58  Identities=19%  Similarity=0.390  Sum_probs=36.1

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCC-CcccceeeeEEEEEEEEeCCeEEEEEEEeCCCc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFS-QQYKATIGADFVTKELQMDDKLVTLQIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   71 (210)
                      ....++|+|+|-||||||||+|+|.+.... ....|+++.+..  .+..+.   .+.++||||-
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~--~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQ--WVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC------------C--CEEETT---TEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECCcccccccce--EEECCC---CeEEecCCCc
Confidence            356899999999999999999999976543 344455544432  222222   3888999994

>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=6e-07  Score=62.30  Aligned_cols=86  Identities=22%  Similarity=0.163  Sum_probs=61.2

Q ss_pred             cccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHc-CCCcE
Q 028305           81 FYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYR-GNIPY  158 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~-~~~~~  158 (210)
                      ...+.|.+++|+++.+|+ +...+.+++......       ++|.++|+||+|+.+.    ...+........+ ...++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~-------~i~pvIvlnK~DL~~~----~~~~~~~~~~~~~~~~~~v   75 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN-------ELETVMVINKMDLYDE----DDLRKVRELEEIYSGLYPI   75 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT-------TCEEEEEECCGGGCCH----HHHHHHHHHHHHHTTTSCE
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc-------CCCEEEEEeCcccCCH----HHHHHHHHhhcccccceeE
Confidence            357889999999998864 455566666655543       7899999999999753    1222333333322 23789


Q ss_pred             EEecCCCCCChHHHHHHHH
Q 028305          159 FETSAKEDCNIDEAFLCVA  177 (210)
Q Consensus       159 ~~~Sa~~~~~v~~~~~~l~  177 (210)
                      +.+|++++.|++++...+.
T Consensus        76 ~~vSa~~~~g~~~L~~~l~   94 (225)
T d1u0la2          76 VKTSAKTGMGIEELKEYLK   94 (225)
T ss_dssp             EECCTTTCTTHHHHHHHHS
T ss_pred             EEeccccchhHhhHHHHhc
Confidence            9999999999999888763

>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=98.37  E-value=4.1e-07  Score=62.81  Aligned_cols=147  Identities=18%  Similarity=0.216  Sum_probs=77.3

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhh----CcCC------Ccccc-----------eeeeEEEEEEEEeC------
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVY----NKFS------QQYKA-----------TIGADFVTKELQMD------   57 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~----~~~~------~~~~~-----------~~~~~~~~~~~~~~------   57 (210)
                      .+.++..+.-|+++|++|+||||.+-+|..    ....      +.+..           ..+..++......+      
T Consensus         4 l~~~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~   83 (213)
T d1vmaa2           4 LNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAF   83 (213)
T ss_dssp             CCCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHH
T ss_pred             CcCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHH
Confidence            344567788999999999999998876642    1111      00000           00111110000000      


Q ss_pred             -------CeEEEEEEEeCCCccccccc----ccc---cc-----cCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCC
Q 028305           58 -------DKLVTLQIWDTAGQERFQSL----GSA---FY-----RGADCCVLVYDVNVQ-KTFESLQNWREEFLKQADPG  117 (210)
Q Consensus        58 -------~~~~~~~i~D~~g~~~~~~~----~~~---~~-----~~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~  117 (210)
                             .....+.++||+|.......    ...   ..     ...+-.++|.|.... +....+...+..+       
T Consensus        84 ~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------  156 (213)
T d1vmaa2          84 DAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAV-------  156 (213)
T ss_dssp             HHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHS-------
T ss_pred             HHHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhcccc-------
Confidence                   00235899999993221111    111   11     124678999998653 2233333333222       


Q ss_pred             CCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305          118 EHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus       118 ~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                         + +--+++||.|....      .-.+...+...+ .++..++  +|.++++
T Consensus       157 ---~-~~~lI~TKlDe~~~------~G~~l~~~~~~~-~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         157 ---N-VTGIILTKLDGTAK------GGITLAIARELG-IPIKFIG--VGEKAED  197 (213)
T ss_dssp             ---C-CCEEEEECGGGCSC------TTHHHHHHHHHC-CCEEEEE--CSSSGGG
T ss_pred             ---C-CceEEEecccCCCc------ccHHHHHHHHHC-CCEEEEe--CCCCccc
Confidence               2 45678899996532      344555566666 7877776  4666654

>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=98.36  E-value=1e-07  Score=66.28  Aligned_cols=23  Identities=39%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ..+|+|++|+|||||+|+|.+..
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchh
Confidence            56899999999999999998653

>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=98.35  E-value=1.3e-07  Score=65.96  Aligned_cols=88  Identities=14%  Similarity=0.038  Sum_probs=61.2

Q ss_pred             cccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEE
Q 028305           81 FYRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYF  159 (210)
Q Consensus        81 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (210)
                      ...+.|.+++|+++.+|+ +...+.+++......       +++.+||+||+|+.+........+.........+ ++++
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~-------~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g-~~v~   78 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEAN-------DIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIG-YDVY   78 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTT-------TCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT-CCEE
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHHc-------CCCEEEEEecccccccHHHHHHHHHHHHHHhhcc-ccce
Confidence            356889999999998764 456666666555432       7899999999999764211111222333344456 8999


Q ss_pred             EecCCCCCChHHHHHHH
Q 028305          160 ETSAKEDCNIDEAFLCV  176 (210)
Q Consensus       160 ~~Sa~~~~~v~~~~~~l  176 (210)
                      .+|+.++.|++++...+
T Consensus        79 ~~Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          79 LTSSKDQDSLADIIPHF   95 (231)
T ss_dssp             ECCHHHHTTCTTTGGGG
T ss_pred             eeecCChhHHHHHHHhh
Confidence            99999999998877655

>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=98.34  E-value=5.3e-06  Score=55.44  Aligned_cols=23  Identities=43%  Similarity=0.820  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +||+++|++|+|||||++.+.+.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999998853

>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=98.34  E-value=3.7e-06  Score=58.61  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-.+|.|..|||||||+++++..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhc
Confidence            34788999999999999999865

>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=98.26  E-value=3.2e-06  Score=58.17  Aligned_cols=91  Identities=20%  Similarity=0.189  Sum_probs=52.9

Q ss_pred             EEEEEEeCCCcccccc------ccccc--ccCCcEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecC
Q 028305           61 VTLQIWDTAGQERFQS------LGSAF--YRGADCCVLVYDVNVQK-TFESLQNWREEFLKQADPGEHEACPFVLLGNKI  131 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~------~~~~~--~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~  131 (210)
                      ..+.++||+|...+..      ....+  ....+-+++|.+.+... ..+....++..+          + +--++.||.
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~----------~-~~~lI~TKl  163 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQAS----------K-IGTIIITKM  163 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHC----------T-TEEEEEECT
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhccc----------C-cceEEEecc
Confidence            3589999999432221      11111  22357889999987643 233332222221          2 345779999


Q ss_pred             CCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305          132 DTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus       132 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      |...      ..-.+...+...+ .++..++  +|.++++
T Consensus       164 Det~------~~G~~l~~~~~~~-lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         164 DGTA------KGGGALSAVAATG-ATIKFIG--TGEKIDE  194 (211)
T ss_dssp             TSCS------CHHHHHHHHHTTT-CCEEEEE--CSSSTTC
T ss_pred             cCCC------cccHHHHHHHHHC-cCEEEEe--CCCCccc
Confidence            9754      2456666666666 7877776  4666654

>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=98.25  E-value=3e-06  Score=58.15  Aligned_cols=92  Identities=15%  Similarity=0.074  Sum_probs=52.4

Q ss_pred             EEEEEEeCCCccccccc----cccc---c-----cCCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEE
Q 028305           61 VTLQIWDTAGQERFQSL----GSAF---Y-----RGADCCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLL  127 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~----~~~~---~-----~~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv  127 (210)
                      ..+.++||+|.......    ...+   .     ...+-+++|.|.... +....+..++..+          + +--++
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~----------~-~~~lI  157 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV----------G-LTGVI  157 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH----------C-CSEEE
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc----------C-CceEE
Confidence            35899999994322211    1111   1     245788999998764 3444444444444          2 34567


Q ss_pred             EecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHH
Q 028305          128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEA  172 (210)
Q Consensus       128 ~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  172 (210)
                      .||.|....      .-.+...+...+ .++..++  +|++.+++
T Consensus       158 ~TKlDet~~------~G~~l~~~~~~~-~Pi~~i~--~Gq~p~Dl  193 (207)
T d1okkd2         158 VTKLDGTAK------GGVLIPIVRTLK-VPIKFVG--VGEGPDDL  193 (207)
T ss_dssp             EECTTSSCC------CTTHHHHHHHHC-CCEEEEE--CSSSTTCE
T ss_pred             EeccCCCCC------ccHHHHHHHHHC-CCEEEEe--CCCChHhC
Confidence            899997543      234444555566 7776666  34555543

>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=98.24  E-value=1.3e-07  Score=65.96  Aligned_cols=22  Identities=41%  Similarity=0.634  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+++|++|+|||||+|+|.+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4579999999999999999865

>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=98.23  E-value=1.9e-06  Score=62.00  Aligned_cols=92  Identities=14%  Similarity=0.099  Sum_probs=64.1

Q ss_pred             ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCc
Q 028305           78 GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIP  157 (210)
Q Consensus        78 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~  157 (210)
                      ....++.+|++++|.|+.+|.+..+-     .+.....     +.|.|+|+||+|+.+.   ... +......+..+ ..
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~~-----~l~~~~~-----~Kp~IlVlNK~DLv~~---~~~-~~w~~~f~~~~-~~   73 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRNP-----MIEDILK-----NKPRIMLLNKADKADA---AVT-QQWKEHFENQG-IR   73 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSCH-----HHHHHCS-----SSCEEEEEECGGGSCH---HHH-HHHHHHHHTTT-CC
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCCH-----HHHHHHc-----CCCeEEEEECccCCch---HHH-HHHHHHHHhcC-Cc
Confidence            34568899999999999988664431     1222222     5699999999999752   222 23333334444 78


Q ss_pred             EEEecCCCCCChHHHHHHHHHHHHhcc
Q 028305          158 YFETSAKEDCNIDEAFLCVAEIALKNE  184 (210)
Q Consensus       158 ~~~~Sa~~~~~v~~~~~~l~~~~~~~~  184 (210)
                      .+.+|+.++.+..++...+.+.+.+..
T Consensus        74 ~i~isa~~~~~~~~~~~~~~~~l~~~~  100 (273)
T d1puja_          74 SLSINSVNGQGLNQIVPASKEILQEKF  100 (273)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHHH
T ss_pred             cceeecccCCCccccchhhhhhhhhhh
Confidence            999999999999998888877766543

>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=98.23  E-value=2.1e-06  Score=59.05  Aligned_cols=91  Identities=16%  Similarity=0.131  Sum_probs=52.0

Q ss_pred             EEEEEEeCCCcccccc----cc---ccccc-----CCcEEEEEEECCCh-hhHHHHHHHHHHHHHhcCCCCCCCCCEEEE
Q 028305           61 VTLQIWDTAGQERFQS----LG---SAFYR-----GADCCVLVYDVNVQ-KTFESLQNWREEFLKQADPGEHEACPFVLL  127 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~----~~---~~~~~-----~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~p~ilv  127 (210)
                      ..+.++||+|......    ..   ...++     ..+-+++|.|.... +.......++..+          + +--++
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~----------~-~~~lI  160 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV----------G-LTGIT  160 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS----------C-CCEEE
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc----------C-CceEE
Confidence            3578999999322111    11   11121     24688999998754 3333333333332          2 45678


Q ss_pred             EecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHH
Q 028305          128 GNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDE  171 (210)
Q Consensus       128 ~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  171 (210)
                      .||.|....      .-.+...+...+ .++..++  +|+++++
T Consensus       161 lTKlDe~~~------~G~~l~~~~~~~-~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         161 LTKLDGTAK------GGVIFSVADQFG-IPIRYIG--VGERIED  195 (211)
T ss_dssp             EECCTTCTT------TTHHHHHHHHHC-CCEEEEE--CSSSGGG
T ss_pred             EeecCCCCC------ccHHHHHHHHHC-CCEEEEe--CCCCccc
Confidence            899997543      345555566666 7877776  6666654

>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=97.95  E-value=2.8e-06  Score=57.82  Aligned_cols=28  Identities=32%  Similarity=0.421  Sum_probs=24.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      |.+.++..|+|+|+|||||||+.++|..
T Consensus         1 ~~~~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           1 MEKSKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCCCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4566778899999999999999998874

>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=97.92  E-value=2.7e-06  Score=56.61  Aligned_cols=26  Identities=23%  Similarity=0.457  Sum_probs=23.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +++.++|+|.|++||||||+.+.|..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            56789999999999999999998864

>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=97.87  E-value=3.2e-06  Score=56.82  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .=+|+|.|++|||||||+++|..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999874

>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=97.85  E-value=3.7e-05  Score=52.63  Aligned_cols=84  Identities=23%  Similarity=0.241  Sum_probs=47.2

Q ss_pred             EEEEEEeCCCccccccc----cccc--ccCCcEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCCCCCCEEEEEecCCC
Q 028305           61 VTLQIWDTAGQERFQSL----GSAF--YRGADCCVLVYDVNVQKT-FESLQNWREEFLKQADPGEHEACPFVLLGNKIDT  133 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~~~~~p~ilv~~K~D~  133 (210)
                      ..+.++||+|.......    +..+  ....+-+++|.|...... .+....+...+          + +-=+++||.|.
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~----------~-~~~~I~TKlDe  161 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV----------G-VTGLVLTKLDG  161 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT----------C-CCEEEEECGGG
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC----------C-CCeeEEeecCc
Confidence            35899999993322211    1111  235688999999876532 22222222222          2 33577899996


Q ss_pred             CCCCCcccchHHHHHHHHHcCCCcEEEec
Q 028305          134 DGGSSRVVPQKKALEWCAYRGNIPYFETS  162 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  162 (210)
                      ...      .-.+...+...+ .++..++
T Consensus       162 ~~~------~G~~l~~~~~~~-~Pi~~i~  183 (207)
T d1ls1a2         162 DAR------GGAALSARHVTG-KPIYFAG  183 (207)
T ss_dssp             CSS------CHHHHHHHHHHC-CCEEEEC
T ss_pred             ccc------chHHHHHHHHHC-CCEEEEe
Confidence            532      344555556666 7776664

>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=97.80  E-value=5.6e-06  Score=54.78  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -++|+|++|||||||+++|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999984

>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=97.77  E-value=4.6e-06  Score=55.30  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..+|+|+|+|||||||+.+.|..
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            56899999999999999998863

>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=97.73  E-value=8.7e-06  Score=55.11  Aligned_cols=24  Identities=21%  Similarity=0.410  Sum_probs=21.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.++|+++|+|||||||....|..
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            567999999999999999998873

>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=97.70  E-value=7.1e-06  Score=55.54  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .+++|+|.|+|||||||+.+.|.
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La   24 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIK   24 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999998876

>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=97.68  E-value=1.1e-05  Score=52.42  Aligned_cols=20  Identities=20%  Similarity=0.625  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |++.|+||||||||.++|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999999874

>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=97.68  E-value=1e-05  Score=54.20  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++|+|+|+|||||||+.+.|..
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            4799999999999999988763

>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=97.68  E-value=1.2e-05  Score=54.46  Aligned_cols=26  Identities=23%  Similarity=0.487  Sum_probs=22.9

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.+.++|+|+|+|||||||+...|..
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHH
Confidence            34678999999999999999999874

>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=97.67  E-value=1.6e-05  Score=53.01  Aligned_cols=29  Identities=21%  Similarity=0.384  Sum_probs=24.1

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ....+.+.-|+++|.||||||||.+++..
T Consensus         8 ~~~~~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2           8 SLLSPNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CSSCSSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             ccCCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34456677899999999999999999863

>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=97.65  E-value=5e-05  Score=54.40  Aligned_cols=64  Identities=22%  Similarity=0.139  Sum_probs=42.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhhCcCCC-----cccceeeeEEEEEEEEeCCeEEEEEEEeCCCccc
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVYNKFSQ-----QYKATIGADFVTKELQMDDKLVTLQIWDTAGQER   73 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   73 (210)
                      ..+..-|.|+|+.++|||+|+|.|++....-     ....|.++-.....+ .++....+.++||.|...
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBCC
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEecccccc
Confidence            3456789999999999999999999766431     122344443332222 244456789999999654

>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=97.63  E-value=1.4e-05  Score=53.74  Aligned_cols=22  Identities=23%  Similarity=0.542  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++|+|+|+|||||||+...|..
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            4799999999999999988874

>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=97.61  E-value=1.5e-05  Score=53.41  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++|+|+|+|||||||+.+.|..
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            5899999999999999998873

>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=97.59  E-value=1.8e-05  Score=53.04  Aligned_cols=23  Identities=17%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++|+|+|+|||||||+.+.|..
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            47899999999999999998863

>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=97.57  E-value=1.8e-05  Score=52.99  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ++|+|+|+|||||||..+.|.
T Consensus         1 m~I~i~G~pGSGKsT~~~~La   21 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIM   21 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            489999999999999998886

>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=97.56  E-value=2.1e-05  Score=51.90  Aligned_cols=20  Identities=40%  Similarity=0.534  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.|+|.+|||||||+++|+.
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            46999999999999999874

>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=97.55  E-value=2.5e-05  Score=52.90  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++.|+|+|+|||||||....|..
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            57899999999999999988863

>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=97.54  E-value=2.1e-05  Score=51.99  Aligned_cols=20  Identities=30%  Similarity=0.542  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |++.|+|||||||+.++|..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999874

>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=97.51  E-value=3.5e-05  Score=51.17  Aligned_cols=26  Identities=12%  Similarity=0.236  Sum_probs=22.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ++...+-|.++|.+||||||+.+.|.
T Consensus         2 ~~~~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           2 RATQGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             TTTCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            45567889999999999999998876

>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=97.46  E-value=2.8e-05  Score=51.82  Aligned_cols=20  Identities=40%  Similarity=0.694  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      +|++.|++|+|||||+..+.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~   22 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKAS   22 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            48999999999999999887

>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=97.43  E-value=4.7e-05  Score=51.37  Aligned_cols=27  Identities=37%  Similarity=0.337  Sum_probs=23.2

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .....++-|+|.|++|||||||.++|.
T Consensus        17 ~~~~~~~iIgI~G~~GSGKSTla~~L~   43 (198)
T d1rz3a_          17 IKTAGRLVLGIDGLSRSGKTTLANQLS   43 (198)
T ss_dssp             SCCSSSEEEEEEECTTSSHHHHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            344567889999999999999999986

>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=97.42  E-value=4.7e-05  Score=52.05  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.-|+++|.|||||||+.++|..
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            45689999999999999999873

>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=97.41  E-value=3.4e-05  Score=50.40  Aligned_cols=21  Identities=24%  Similarity=0.528  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+++|++||||||+.+.|..
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            589999999999999998874

>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=97.36  E-value=4.7e-05  Score=55.80  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      -+|+|.|++|||||||++.|+..-.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcc
Confidence            4699999999999999999986443

>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=97.35  E-value=4.8e-05  Score=50.77  Aligned_cols=19  Identities=37%  Similarity=0.499  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      |+|.|++||||||+++.|.
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            7889999999999999875

>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=97.33  E-value=6.9e-05  Score=53.24  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=21.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+--|++.|+||+|||||.+.+...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4556999999999999999998754

>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=97.32  E-value=5.9e-05  Score=50.77  Aligned_cols=21  Identities=29%  Similarity=0.676  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+||+||||+||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            799999999999999999754

>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=97.32  E-value=2.7e-05  Score=52.10  Aligned_cols=21  Identities=29%  Similarity=0.681  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+||.|+||+||+++|+..
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999853

>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=97.30  E-value=7.4e-05  Score=50.55  Aligned_cols=30  Identities=23%  Similarity=0.429  Sum_probs=25.8

Q ss_pred             ccccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            5 VNMKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         5 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...+..+++-|+|-|..||||||+++.|..
T Consensus         2 ~~~~~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           2 KYAEGTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CBTTTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CccCCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            345677889999999999999999998874

>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=97.29  E-value=9.7e-05  Score=49.97  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=20.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..--|+|+|+|||||||+...|..
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345689999999999999998864

>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=97.27  E-value=7.2e-05  Score=50.07  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+||+|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999998744

>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=97.27  E-value=7.5e-05  Score=52.30  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +|+|+|+.|||||||++.+.+-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999988753

>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=97.25  E-value=5.8e-05  Score=49.71  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .+|+++|++||||||+.+.|.
T Consensus         2 p~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            368999999999999998775

>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=97.24  E-value=8.6e-05  Score=49.03  Aligned_cols=20  Identities=20%  Similarity=0.527  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |++.|++||||||+.+.|..
T Consensus         7 I~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999988864

>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=97.22  E-value=7.3e-05  Score=49.03  Aligned_cols=20  Identities=25%  Similarity=0.542  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      +|+++|++||||||+.+.|.
T Consensus         2 ~I~liG~~GsGKsTi~k~La   21 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALA   21 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            48999999999999998875

>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=97.21  E-value=0.00011  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .++-|+|.|++|||||||.+.|.
T Consensus         1 ~P~iIgI~G~~gSGKSTla~~L~   23 (213)
T d1uj2a_           1 EPFLIGVSGGTASGKSSVCAKIV   23 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            36889999999999999999885

>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=97.19  E-value=9.4e-05  Score=50.01  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      --|+|+|+|||||||+..+|..
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999998874

>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=97.19  E-value=9.5e-05  Score=50.32  Aligned_cols=23  Identities=30%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            47899999999999999987643

>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=97.19  E-value=9e-05  Score=51.78  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=21.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...-.+++.||||+||||+++.+...
T Consensus        33 ~~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          33 EPLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             SCCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999988753

>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=97.18  E-value=0.00014  Score=47.85  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=19.7

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..--++|.|++||||||+.+.|..
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            344567899999999999999874

>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=97.17  E-value=0.00011  Score=49.63  Aligned_cols=20  Identities=35%  Similarity=0.688  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |+|+||+|||||||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

>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=97.17  E-value=0.00011  Score=51.50  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999988753

>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=97.16  E-value=0.00011  Score=48.56  Aligned_cols=20  Identities=25%  Similarity=0.433  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      |+|.|++||||||+.+.|..
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            66779999999999999874

>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=97.16  E-value=0.00019  Score=46.63  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=21.8

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+..-|++-|+-|||||||++.++..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhh
Confidence            34566899999999999999998844

>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=97.16  E-value=0.00016  Score=50.86  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=22.9

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...+...|++.||||+|||+|++.+..
T Consensus        36 ~~~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          36 DRTPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHhh
Confidence            334567899999999999999999875

>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=97.15  E-value=0.00012  Score=50.90  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|+.|||||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999987754

>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=97.15  E-value=0.00011  Score=51.79  Aligned_cols=21  Identities=29%  Similarity=0.510  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++++|+.|||||||++.+.+
T Consensus        43 ~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            689999999999999988875

>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=50.03  Aligned_cols=21  Identities=38%  Similarity=0.534  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |+|+||+|||||||+++|+..
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            689999999999999999854

>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=97.12  E-value=0.00012  Score=50.82  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            4789999999999999977653

>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=97.12  E-value=0.00013  Score=51.45  Aligned_cols=22  Identities=18%  Similarity=0.299  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            6899999999999999987753

>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=97.11  E-value=0.00015  Score=48.89  Aligned_cols=22  Identities=27%  Similarity=0.599  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -+++++|+||+|||++++.|..
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHH
Confidence            3789999999999999987763

>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=97.11  E-value=0.00014  Score=50.68  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            35689999999999999888644

>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=97.10  E-value=0.00014  Score=52.15  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++|+|+.|||||||++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4899999999999999988754

>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=97.08  E-value=0.00015  Score=50.53  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            37999999999999999887643

>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=97.07  E-value=0.00013  Score=50.86  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...+++.||||+||||+.+.+...
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHhc
Confidence            447999999999999999988743

>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=97.04  E-value=9.7e-05  Score=49.67  Aligned_cols=24  Identities=29%  Similarity=0.214  Sum_probs=20.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ...-|.++|.|||||||+.+.|..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456788999999999999998863

>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=97.02  E-value=0.00012  Score=50.63  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            37899999999999999988644

>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=97.02  E-value=0.00018  Score=47.48  Aligned_cols=19  Identities=21%  Similarity=0.524  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      |+++|++||||||+.+.|.
T Consensus         5 Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999998875

>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=97.00  E-value=0.00017  Score=50.37  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            37899999999999999988644

>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=97.00  E-value=0.00017  Score=50.29  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|+.|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999988764

>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=97.00  E-value=0.00019  Score=50.02  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47899999999999999887543

>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=97.00  E-value=0.0002  Score=50.82  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=19.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .-++++||+||+|||++++.|.
T Consensus        39 k~n~lLVG~~GvGKTalv~~la   60 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLA   60 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHH
Confidence            3478999999999999998876

>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=96.99  E-value=0.00018  Score=48.03  Aligned_cols=20  Identities=40%  Similarity=0.690  Sum_probs=17.0

Q ss_pred             EE-EEEcCCCCcHHHHHHHHh
Q 028305           14 KV-IVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i-~v~G~~~~GKSsli~~l~   33 (210)
                      || +|.|.+||||||+++.|.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            45 467999999999999885

>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=96.98  E-value=0.00022  Score=49.10  Aligned_cols=23  Identities=13%  Similarity=0.346  Sum_probs=20.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +.+.|++-|||||||||....|.
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La   24 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIA   24 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            35789999999999999998876

>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=96.97  E-value=0.00014  Score=51.30  Aligned_cols=21  Identities=38%  Similarity=0.491  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +++|+|+.|||||||++.+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            689999999999999987664

>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=96.96  E-value=0.00015  Score=50.47  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++++|+.|||||||++.+.+-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999998863

>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=96.92  E-value=0.00028  Score=49.19  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++++|+.|||||||++.+.+-.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36899999999999999888654

>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=96.91  E-value=0.0004  Score=46.57  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=21.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++-|+|.|.+||||||+.+.|...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            5788999999999999999987643

>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=96.89  E-value=0.0003  Score=48.73  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+++.||+|+||||+++.+...
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            36899999999999999988753

>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=96.86  E-value=0.0003  Score=48.11  Aligned_cols=29  Identities=21%  Similarity=0.298  Sum_probs=24.7

Q ss_pred             cccccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            6 NMKRRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         6 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++.....+-|.|.|.||||||||.+.|..
T Consensus        18 ~~~~~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          18 ELRNQRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             HHHTSSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34567788899999999999999998863

>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=96.85  E-value=0.00028  Score=49.74  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      ++++|+.|||||||++.+.+-.
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            6899999999999999988653

>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=96.84  E-value=0.00034  Score=49.07  Aligned_cols=25  Identities=20%  Similarity=0.365  Sum_probs=21.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.+++.||||+||||+++.+...
T Consensus        51 ~~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3447999999999999999998853

>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=96.83  E-value=0.00031  Score=49.63  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .++++|+.|||||||++.+.+-
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            4789999999999999988754

>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=96.81  E-value=0.00017  Score=50.35  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            47999999999999999888643

>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=96.77  E-value=0.00044  Score=48.77  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.0

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..+-.++|.|+||+|||++++.+...
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            34568999999999999999988754

>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=96.76  E-value=0.00038  Score=50.61  Aligned_cols=25  Identities=24%  Similarity=0.481  Sum_probs=21.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++-.++++||||+|||.|.+++...
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhc
Confidence            4457899999999999999998753

>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=96.73  E-value=0.00054  Score=49.58  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=22.4

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      ...++-|+|.|++|||||||.+.|.
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            4678999999999999999998875

>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=96.72  E-value=0.00065  Score=48.57  Aligned_cols=26  Identities=23%  Similarity=0.210  Sum_probs=22.4

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .+..++=|.|.|++|||||||...+.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHH
Confidence            45678999999999999999987664

>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=96.72  E-value=0.00039  Score=49.35  Aligned_cols=22  Identities=32%  Similarity=0.366  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -+++.|+||+|||++++.+...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3456799999999999998743

>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=96.70  E-value=0.00047  Score=47.24  Aligned_cols=20  Identities=30%  Similarity=0.476  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -|++.|||||||+|+...|.
T Consensus         5 iI~I~GppGSGKgT~ak~La   24 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMA   24 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57888999999999998876

>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=96.68  E-value=0.00049  Score=48.28  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +-.|++.||||+|||+|++.+..
T Consensus        42 ~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEecCCCCChhHHHHHHHH
Confidence            34699999999999999999985

>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=96.63  E-value=0.00054  Score=47.46  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+++.||+|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999988753

>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=96.63  E-value=0.0006  Score=48.16  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .+-.|++.||||+|||+|++.+...
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHHH
Confidence            4557999999999999999998853

>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=96.60  E-value=0.00053  Score=48.41  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++|+|||||++++..
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            578999999999999998874

>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=96.58  E-value=0.00062  Score=46.86  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .++++.||+|+||||+++.+..
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHH
Confidence            3589999999999999998764

>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=96.57  E-value=0.00054  Score=47.92  Aligned_cols=24  Identities=21%  Similarity=0.390  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      .-++++.|++|+||||+++.+...
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            336899999999999999988754

>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=96.52  E-value=0.00069  Score=46.66  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++++.|++|+||||+++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5899999999999999998754

>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=96.51  E-value=0.00081  Score=47.40  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +-.+++.||||+|||++++.+..
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHH
Confidence            45699999999999999999884

>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=96.38  E-value=0.00093  Score=45.25  Aligned_cols=20  Identities=25%  Similarity=0.493  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -|+|-|..||||||+++.|.
T Consensus         2 lI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999876

>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=96.32  E-value=0.00083  Score=51.16  Aligned_cols=21  Identities=29%  Similarity=0.681  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      =+|+++||+|||||-|.++|.
T Consensus        50 sNILliGPTGvGKTlLAr~LA   70 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLA   70 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHH
Confidence            389999999999999999885

>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=96.30  E-value=0.00099  Score=47.19  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.4

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-.|++.|++|+|||+|++++...
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHH
Confidence            3456999999999999999998753

>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=96.19  E-value=0.00083  Score=50.22  Aligned_cols=21  Identities=29%  Similarity=0.654  Sum_probs=17.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~   33 (210)
                      =++++||+||+|||++++.|.
T Consensus        44 ~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCeEECCCCCCHHHHHHHHH
Confidence            357999999999999986544

>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=96.18  E-value=0.0022  Score=43.59  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCc
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      |-|+|.|.+||||||+.+.|....
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G   27 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLG   27 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCC
Confidence            568999999999999999876443

>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=96.13  E-value=0.0015  Score=44.31  Aligned_cols=19  Identities=37%  Similarity=0.553  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      |+|-|..||||||+++.|.
T Consensus         5 IviEG~dGsGKsT~~~~L~   23 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVV   23 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7788999999999999876

>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=96.10  E-value=0.0025  Score=43.10  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +-|+|.|..||||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999987753

>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=96.09  E-value=0.0017  Score=43.99  Aligned_cols=23  Identities=17%  Similarity=0.242  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -+.|.|+||+|||+|...|..+.
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46899999999999999987543

>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=96.04  E-value=0.0017  Score=48.02  Aligned_cols=23  Identities=22%  Similarity=0.157  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .--+++.||||+|||+|.+.+.+
T Consensus       154 ~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCeEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999874

>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=96.03  E-value=0.00082  Score=49.22  Aligned_cols=20  Identities=35%  Similarity=0.694  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      +|++.|+||+|||+|++++.
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            69999999999999999885

>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=95.93  E-value=0.0029  Score=41.66  Aligned_cols=25  Identities=40%  Similarity=0.579  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      .-|++.|++|+||||+.-.|+...+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4589999999999999999886543

>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=95.90  E-value=0.0023  Score=43.53  Aligned_cols=19  Identities=21%  Similarity=0.413  Sum_probs=16.6

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      |+|-|..||||||+++.|.
T Consensus         6 I~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7778999999999888765

>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=95.89  E-value=0.0021  Score=44.44  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -+.|.|+||+|||+|...+....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887543

>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=95.83  E-value=0.0016  Score=45.07  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|-|+.||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998764

>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=95.80  E-value=0.0025  Score=44.27  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++|.|+||+|||+|...+..+.
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887443

>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=95.78  E-value=0.0033  Score=41.40  Aligned_cols=25  Identities=24%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      .-|++.|++|+||||+.-.|+...+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            3589999999999999999986443

>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=95.71  E-value=0.0041  Score=45.07  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.-.++++||+|+|||.|.+.|..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            344789999999999999998763

>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=95.59  E-value=0.0017  Score=48.77  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      =-|+|.|+.||||||.+..++..
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCccHHHHHHhhh
Confidence            34899999999999999998864

>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=95.58  E-value=0.0035  Score=43.28  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      --++|.|+||+|||+|+.++..+
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            35789999999999999998754

>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=95.58  E-value=0.0017  Score=46.24  Aligned_cols=20  Identities=25%  Similarity=0.514  Sum_probs=15.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -|+|.|++||||||+.++|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            49999999999999999875

>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=95.52  E-value=0.0049  Score=40.27  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCcC
Q 028305           13 LKVIVLGDSGVGKTSLMNQYVYNKF   37 (210)
Q Consensus        13 ~~i~v~G~~~~GKSsli~~l~~~~~   37 (210)
                      .-|++.|++|+||||+.-.|+....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4689999999999999998886543

>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=95.43  E-value=0.0037  Score=46.24  Aligned_cols=26  Identities=19%  Similarity=0.388  Sum_probs=22.2

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.++-+++++||+|+|||-|.++|..
T Consensus        65 ~~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          65 ELSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCCcceeeeCCCCccHHHHHHHHHh
Confidence            44567799999999999999998863

>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=95.39  E-value=0.0046  Score=44.77  Aligned_cols=21  Identities=38%  Similarity=0.468  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      +++.|+||+|||.|.+.+...
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            455799999999999998753

>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=95.38  E-value=0.00082  Score=45.12  Aligned_cols=18  Identities=33%  Similarity=0.689  Sum_probs=16.1

Q ss_pred             EEEcCCCCcHHHHHHHHh
Q 028305           16 IVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        16 ~v~G~~~~GKSsli~~l~   33 (210)
                      +|+|+.|||||||+.++.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            578999999999999875

>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=95.35  E-value=0.0045  Score=42.76  Aligned_cols=21  Identities=19%  Similarity=0.436  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            588999999999999998874

>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=95.34  E-value=0.0046  Score=42.62  Aligned_cols=23  Identities=35%  Similarity=0.338  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      -++|.|+||+|||+|...+..+.
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            47899999999999999987443

>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=95.31  E-value=0.0055  Score=44.54  Aligned_cols=24  Identities=38%  Similarity=0.544  Sum_probs=21.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..++|.|=|+.|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            467899999999999999998863

>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=95.29  E-value=0.004  Score=41.74  Aligned_cols=24  Identities=13%  Similarity=0.220  Sum_probs=20.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.=-+++.||+++|||.|+.+|+.
T Consensus        52 Kkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          52 KKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             CceEEEEECCCCccHHHHHHHHHH
Confidence            334588999999999999998874

>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=95.27  E-value=0.0052  Score=42.54  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -++|.|+||+|||+|...+...
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999998854

>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=95.25  E-value=0.0034  Score=45.07  Aligned_cols=18  Identities=22%  Similarity=0.623  Sum_probs=16.2

Q ss_pred             EEEcCCCCcHHHHHHHHh
Q 028305           16 IVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        16 ~v~G~~~~GKSsli~~l~   33 (210)
                      +++|+.||||||++.++.
T Consensus        28 vlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEECCTTTCSTHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHH
Confidence            689999999999999873

>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=95.25  E-value=0.0056  Score=41.66  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCc
Q 028305           15 VIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      +.+.|++|+|||-|++++....
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999988543

>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=95.25  E-value=0.0055  Score=44.60  Aligned_cols=25  Identities=24%  Similarity=0.582  Sum_probs=22.3

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..++|.|=|..|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            5688999999999999999998753

>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=95.24  E-value=0.0067  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ..++|.|=|+.|+||||+++.|..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            578999999999999999998874

>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=95.21  E-value=0.0061  Score=41.24  Aligned_cols=21  Identities=14%  Similarity=0.336  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -+++.|++|+||||+++.+..
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999997764

>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=95.12  E-value=0.0064  Score=42.06  Aligned_cols=20  Identities=35%  Similarity=0.519  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      .+++.|++|+|||++++.+.
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHH
Confidence            47899999999999998875

>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=95.05  E-value=0.0063  Score=41.41  Aligned_cols=19  Identities=26%  Similarity=0.359  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      |+|-|..||||||+++.|.
T Consensus         6 I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            7899999999999998876

>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=95.01  E-value=0.0082  Score=42.56  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=21.2

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ...-|+|.|..|.|||||...+.+.
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4556899999999999999998753

>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=94.78  E-value=0.0084  Score=40.91  Aligned_cols=20  Identities=40%  Similarity=0.620  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      -+.|.|+||+|||+|...+.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            46788999999999997765

>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=94.56  E-value=0.01  Score=41.77  Aligned_cols=20  Identities=30%  Similarity=0.607  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028305           15 VIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++|.|+||+|||+|+..+..
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            67999999999999988763

>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=94.52  E-value=0.0086  Score=45.08  Aligned_cols=25  Identities=28%  Similarity=0.586  Sum_probs=20.6

Q ss_pred             ceEEEEEEcCCCCcHHHHHHHHhhC
Q 028305           11 NLLKVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        11 ~~~~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ..-+++|+|.+|+|||+++..++..
T Consensus        49 ~~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          49 EPRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCcHHHHHHHHHHH
Confidence            3457999999999999998877643

>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=94.52  E-value=0.0092  Score=44.57  Aligned_cols=21  Identities=24%  Similarity=0.559  Sum_probs=17.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      .++ +|+|+.|||||+++.++.
T Consensus        26 ~l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEE-EEECSTTSSHHHHHHHHH
T ss_pred             CEE-EEECCCCCCHHHHHHHHH
Confidence            344 588999999999999874

>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=94.45  E-value=0.0075  Score=43.02  Aligned_cols=17  Identities=41%  Similarity=0.708  Sum_probs=13.9

Q ss_pred             EEEEcCCCCcHHHH-HHH
Q 028305           15 VIVLGDSGVGKTSL-MNQ   31 (210)
Q Consensus        15 i~v~G~~~~GKSsl-i~~   31 (210)
                      ++|+|+||+||||. +++
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            68999999999964 444

>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=94.39  E-value=0.012  Score=40.54  Aligned_cols=21  Identities=14%  Similarity=0.183  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -|+|.|..||||||..+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>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=94.18  E-value=0.017  Score=41.63  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=19.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHhh
Q 028305           12 LLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        12 ~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .-.++++||+|+|||.+.+.|..
T Consensus        53 ~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          53 IGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             ceEEEEECCCcchHHHHHHHHHH
Confidence            33678999999999999987763

>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=94.08  E-value=0.011  Score=42.37  Aligned_cols=17  Identities=24%  Similarity=0.663  Sum_probs=13.8

Q ss_pred             EEEEcCCCCcHHHH-HHH
Q 028305           15 VIVLGDSGVGKTSL-MNQ   31 (210)
Q Consensus        15 i~v~G~~~~GKSsl-i~~   31 (210)
                      ++|.|++||||||. +++
T Consensus        27 ~lV~g~aGSGKTt~l~~r   44 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTHR   44 (318)
T ss_dssp             EEEEECTTSCHHHHHHHH
T ss_pred             EEEEecCCccHHHHHHHH
Confidence            78999999999964 444

>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=93.83  E-value=0.017  Score=40.42  Aligned_cols=19  Identities=26%  Similarity=0.340  Sum_probs=16.8

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      .+|.|++|+|||+|+-.+.
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            5689999999999998765

>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=93.70  E-value=0.022  Score=40.36  Aligned_cols=23  Identities=17%  Similarity=0.319  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      |++++|++|+|||+|+..+..+.
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHH
Confidence            78999999999999998887533

>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=93.63  E-value=0.022  Score=40.07  Aligned_cols=25  Identities=16%  Similarity=0.254  Sum_probs=20.9

Q ss_pred             cceEEEEEEcCCCCcHHHHHHHHhh
Q 028305           10 RNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        10 ~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      ++.--+.+.|++++|||+|++.+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            4455678899999999999998874

>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=93.35  E-value=0.024  Score=41.65  Aligned_cols=19  Identities=26%  Similarity=0.527  Sum_probs=15.7

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 028305           14 KVIVLGDSGVGKTSLMNQY   32 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l   32 (210)
                      -.+|.|+||+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4788999999999988553

>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=93.20  E-value=0.04  Score=33.46  Aligned_cols=26  Identities=8%  Similarity=0.158  Sum_probs=22.7

Q ss_pred             cccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            8 KRRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         8 ~~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +.+.-|.|.+-|..|+|||+|.+.|.
T Consensus         2 r~kqgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           2 RPKQGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             GGGCCEEEEECTTCCSCHHHHHHHHH
T ss_pred             CCccceEEEEeCCCCCCHHHHHHHHH
Confidence            34567899999999999999999986

>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=92.63  E-value=0.037  Score=38.74  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -+.|.|++|+|||+|...++..
T Consensus        56 itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHHH
Confidence            4678999999999999888744

>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=91.95  E-value=0.52  Score=31.51  Aligned_cols=65  Identities=8%  Similarity=0.024  Sum_probs=43.8

Q ss_pred             EEEEEEeCCCcccccccccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCEE-EEEecCCCCC
Q 028305           61 VTLQIWDTAGQERFQSLGSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPFV-LLGNKIDTDG  135 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~i-lv~~K~D~~~  135 (210)
                      +.+.++|+++...  ......+..+|.++++...+ ..+.....+....+.+.       ++|++ +|.|+.+..+
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~-------~~~~~giv~N~~~~~~  177 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA-------GLAILGFVLNRYGRSD  177 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT-------TCEEEEEEEEEETSCT
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhhh-------hhhhhhhhhccccccc
Confidence            4688999988543  23344566799999998765 45555555555555432       56765 8999998754

>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=91.50  E-value=0.053  Score=38.12  Aligned_cols=22  Identities=41%  Similarity=0.700  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |++++|++|+|||+|+..+..+
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            6899999999999999888754

>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=90.90  E-value=0.071  Score=36.84  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      .|+|.|++|+||+.+.+.+-.
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHH
Confidence            479999999999999988764

>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=90.47  E-value=0.085  Score=36.12  Aligned_cols=19  Identities=32%  Similarity=0.455  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      +++.|+..+||||+++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            6899999999999999864

>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=90.23  E-value=0.091  Score=35.72  Aligned_cols=19  Identities=26%  Similarity=0.531  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028305           15 VIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~   33 (210)
                      +++.|+..+||||+++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            7899999999999999764

>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=89.87  E-value=0.11  Score=34.51  Aligned_cols=26  Identities=4%  Similarity=0.032  Sum_probs=22.3

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHHhh
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l~~   34 (210)
                      +.....+++.|++|+|||++...+..
T Consensus        12 ~~~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          12 KSEGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             TCSSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHH
Confidence            34677999999999999999988764

>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=89.86  E-value=0.11  Score=34.05  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028305           15 VIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (210)
                      ++|+|...||||.+..++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998743

>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=88.79  E-value=0.11  Score=31.98  Aligned_cols=20  Identities=15%  Similarity=0.184  Sum_probs=15.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028305           14 KVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~   33 (210)
                      ..+|.++.|+|||.++-.+.
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            45778999999998876544

>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=88.73  E-value=0.14  Score=35.86  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      -+.+.|++++|||+|...++..
T Consensus        59 itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHHH
Confidence            4678999999999999887743

>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=88.63  E-value=0.14  Score=35.77  Aligned_cols=21  Identities=24%  Similarity=0.309  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028305           14 KVIVLGDSGVGKTSLMNQYVY   34 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~   34 (210)
                      -+.+.|++++|||+|...+..
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEecCCCcHHHHHHHHHHH
Confidence            467899999999999987763

>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=88.17  E-value=0.16  Score=35.16  Aligned_cols=84  Identities=12%  Similarity=0.016  Sum_probs=47.2

Q ss_pred             EEEEEEeCCCccccccc-ccccccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCC-EEEEEecCCCCCCCC
Q 028305           61 VTLQIWDTAGQERFQSL-GSAFYRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACP-FVLLGNKIDTDGGSS  138 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~-~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p-~ilv~~K~D~~~~~~  138 (210)
                      +.+.++|+|+....... .......+|.++++.+. +..++.........+.......   +.+ .-+|.|+.+....  
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~---~~~~~~vv~N~~~~~~~--  189 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSG---GVRLGGIICNSRKVANE--  189 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTB---BCEEEEEEEECCSSSCC--
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhcccc---ceeccceEEeeecCCCc--
Confidence            45888899874432222 12223457888887766 4566666666666665543321   333 3378898876542  


Q ss_pred             cccchHHHHHHHHHcC
Q 028305          139 RVVPQKKALEWCAYRG  154 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~  154 (210)
                          .+..+.+.+..+
T Consensus       190 ----~~~~~~~~~~~~  201 (269)
T d1cp2a_         190 ----YELLDAFAKELG  201 (269)
T ss_dssp             ----HHHHHHHHHHHT
T ss_pred             ----cchhhhhHhhcC
Confidence                234455555555

>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=87.60  E-value=0.12  Score=36.39  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYN   35 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~   35 (210)
                      |++++|++|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHHh
Confidence            6789999999999998877643

>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=85.55  E-value=0.16  Score=35.57  Aligned_cols=23  Identities=26%  Similarity=0.609  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCc
Q 028305           14 KVIVLGDSGVGKTSLMNQYVYNK   36 (210)
Q Consensus        14 ~i~v~G~~~~GKSsli~~l~~~~   36 (210)
                      |++++|++|+|||+|+..+....
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            57899999999999998765443

>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=85.32  E-value=0.19  Score=35.81  Aligned_cols=15  Identities=47%  Similarity=0.744  Sum_probs=13.6

Q ss_pred             EEEcCCCCcHHHHHH
Q 028305           16 IVLGDSGVGKTSLMN   30 (210)
Q Consensus        16 ~v~G~~~~GKSsli~   30 (210)
                      ++.|..|+|||||-.
T Consensus        18 lfFGLSGTGKTTLs~   32 (313)
T d2olra1          18 VFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEECSTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            699999999999873

>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=84.93  E-value=0.29  Score=30.37  Aligned_cols=18  Identities=28%  Similarity=0.407  Sum_probs=13.9

Q ss_pred             EEEcCCCCcHHH-HHHHHh
Q 028305           16 IVLGDSGVGKTS-LMNQYV   33 (210)
Q Consensus        16 ~v~G~~~~GKSs-li~~l~   33 (210)
                      +++||=.||||| |++++-
T Consensus         6 ~i~GpMfsGKTteLi~~~~   24 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLH   24 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHHH
Confidence            568999999999 555543

>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=84.71  E-value=0.2  Score=35.75  Aligned_cols=16  Identities=44%  Similarity=0.700  Sum_probs=14.1

Q ss_pred             EEEEcCCCCcHHHHHH
Q 028305           15 VIVLGDSGVGKTSLMN   30 (210)
Q Consensus        15 i~v~G~~~~GKSsli~   30 (210)
                      -++.|..|+|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            4899999999999874

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=84.47  E-value=1.6  Score=33.13  Aligned_cols=60  Identities=22%  Similarity=0.047  Sum_probs=41.5

Q ss_pred             CCCEEEEEecCCCCCCCCcccchHHHHHHHHHcCCCcEEEecCCCCCChHHHHHHHHHHHHhccc
Q 028305          121 ACPFVLLGNKIDTDGGSSRVVPQKKALEWCAYRGNIPYFETSAKEDCNIDEAFLCVAEIALKNEH  185 (210)
Q Consensus       121 ~~p~ilv~~K~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~~~~~~~  185 (210)
                      ++|+||.+|+-....    +...+.++.++...+ ..+...-++-|.|-.+|-+.+++.+.+...
T Consensus       368 GlpvVVAIN~F~tDT----d~Ei~~i~~~~~~~g-~~~a~~wa~GG~Ga~dLA~~Vv~a~e~~~~  427 (549)
T d1eg7a_         368 GVPAVVAINAFPTDT----EAELNLLYELCAKAG-AEVALSWAKGGEGGLELARKVLQTLESRPS  427 (549)
T ss_dssp             TCCEEEEEECCTTCC----HHHHHHHHHHTTTSE-EEEECCTTTGGGGGHHHHHHHHHHHHHSCC
T ss_pred             CCCeEEEeccCCccc----hhHHHHHHHHHhhcC-cceeeecccCccchHHHHHHHHHHHhcccc
Confidence            899999999987543    233345555665555 333333356789999999999998866544

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

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: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=83.74  E-value=0.18  Score=30.68  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=12.3

Q ss_pred             EEEEEEcCCCCcHHH
Q 028305           13 LKVIVLGDSGVGKTS   27 (210)
Q Consensus        13 ~~i~v~G~~~~GKSs   27 (210)
                      -++++.+++|+|||.
T Consensus         8 ~~~il~~~tGsGKT~   22 (140)
T d1yksa1           8 MTTVLDFHPGAGKTR   22 (140)
T ss_dssp             CEEEECCCTTSSTTT
T ss_pred             CcEEEEcCCCCChhH
Confidence            456788899999993

>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=83.44  E-value=0.26  Score=35.23  Aligned_cols=15  Identities=47%  Similarity=0.727  Sum_probs=13.6

Q ss_pred             EEEcCCCCcHHHHHH
Q 028305           16 IVLGDSGVGKTSLMN   30 (210)
Q Consensus        16 ~v~G~~~~GKSsli~   30 (210)
                      ++.|..|+|||||-.
T Consensus        18 lfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          18 VFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEECCTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            699999999999983

>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=83.41  E-value=0.39  Score=33.57  Aligned_cols=114  Identities=13%  Similarity=0.170  Sum_probs=57.8

Q ss_pred             EEEEEEeCCCccccccccccc-ccCCcEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE-EEEEecCCCCCCCC
Q 028305           61 VTLQIWDTAGQERFQSLGSAF-YRGADCCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF-VLLGNKIDTDGGSS  138 (210)
Q Consensus        61 ~~~~i~D~~g~~~~~~~~~~~-~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~-ilv~~K~D~~~~~~  138 (210)
                      +.+.++|+|+........... ...++.++++... +..++..+......+.......   +.++ -+|.|+.+...   
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~---~~~~~gvv~n~~~~~~---  191 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSG---SVRLGGLICNSRNTDR---  191 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTS---CCEEEEEEEECCCCTT---
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcc---cccccceeehhhcchh---
Confidence            457888987754322222211 2346767666544 3455555555555554433211   3343 37889876432   


Q ss_pred             cccchHHHHHHHHHcCCCcEEEe---------cCCCCCCh---------HHHHHHHHHHHHhccc
Q 028305          139 RVVPQKKALEWCAYRGNIPYFET---------SAKEDCNI---------DEAFLCVAEIALKNEH  185 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~---------Sa~~~~~v---------~~~~~~l~~~~~~~~~  185 (210)
                         ..+....+.+..+ .+++.+         +...|..+         -+.|..|++.+.+..+
T Consensus       192 ---~~~~~~~~~~~~g-~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~~  252 (289)
T d2afhe1         192 ---EDELIIALANKLG-TQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNKL  252 (289)
T ss_dssp             ---HHHHHHHHHHHHT-SCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             ---hHHHHHHHHHHcC-CeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCCC
Confidence               1233445555555 443321         11223333         3567788888876654

>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=82.76  E-value=4.2  Score=25.92  Aligned_cols=26  Identities=15%  Similarity=0.331  Sum_probs=18.0

Q ss_pred             cceEEEEEEcC-CCCcHHHHHHHHhhCc
Q 028305           10 RNLLKVIVLGD-SGVGKTSLMNQYVYNK   36 (210)
Q Consensus        10 ~~~~~i~v~G~-~~~GKSsli~~l~~~~   36 (210)
                      .+++||+|+|. .+.| ++|+.+|..+.
T Consensus        22 k~~~kV~I~GA~G~Ig-~~l~~~La~g~   48 (175)
T d7mdha1          22 KKLVNIAVSGAAGMIS-NHLLFKLASGE   48 (175)
T ss_dssp             CCCEEEEEETTTSHHH-HHHHHHHHHTT
T ss_pred             CCCcEEEEECCCcHHH-HHHHHHHHcCc
Confidence            46899999997 5555 45565666544

>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=82.23  E-value=0.46  Score=31.32  Aligned_cols=20  Identities=30%  Similarity=0.383  Sum_probs=16.0

Q ss_pred             EEEEEcCC-CCcHHHHHHHHh
Q 028305           14 KVIVLGDS-GVGKTSLMNQYV   33 (210)
Q Consensus        14 ~i~v~G~~-~~GKSsli~~l~   33 (210)
                      |+.|.|-. |+||||+.-.|.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            67888985 999999886553

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=81.79  E-value=0.15  Score=34.78  Aligned_cols=27  Identities=30%  Similarity=0.393  Sum_probs=21.1

Q ss_pred             ccccceEEEEEEcCCCCcHHHHHHHHh
Q 028305            7 MKRRNLLKVIVLGDSGVGKTSLMNQYV   33 (210)
Q Consensus         7 ~~~~~~~~i~v~G~~~~GKSsli~~l~   33 (210)
                      +....+...++.|+.|||||-..-+.+
T Consensus        71 ~~~~~~~~~LL~GdvGsGKT~V~~~a~   97 (233)
T d2eyqa3          71 MCQPLAMDRLVCGDVGFGKTEVAMRAA   97 (233)
T ss_dssp             HHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             HhccCccCeEEEcCCCCCcHHHHHHHH
Confidence            445667889999999999997765544

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=81.55  E-value=0.45  Score=31.00  Aligned_cols=15  Identities=27%  Similarity=0.585  Sum_probs=12.6

Q ss_pred             EEEEEcCCCCcHHHH
Q 028305           14 KVIVLGDSGVGKTSL   28 (210)
Q Consensus        14 ~i~v~G~~~~GKSsl   28 (210)
                      ++++++|.|+|||..
T Consensus        25 n~lv~~pTGsGKT~i   39 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLI   39 (200)
T ss_dssp             CEEEECCTTSCHHHH
T ss_pred             CeEEEeCCCCcHHHH
Confidence            467889999999964

>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=80.78  E-value=0.51  Score=32.59  Aligned_cols=24  Identities=29%  Similarity=0.555  Sum_probs=16.8

Q ss_pred             ccceEEEEEEcCCCCcHHHHHHHH
Q 028305            9 RRNLLKVIVLGDSGVGKTSLMNQY   32 (210)
Q Consensus         9 ~~~~~~i~v~G~~~~GKSsli~~l   32 (210)
                      ....--|++.|.-|+||||+.-.|
T Consensus        17 ~~~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          17 RNEHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             TTSCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHH
Confidence            344445566799999999976443

>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=80.42  E-value=0.64  Score=32.26  Aligned_cols=37  Identities=19%  Similarity=0.115  Sum_probs=23.5

Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCCCCCCE-EEEEecC
Q 028305           87 CCVLVYDVNVQKTFESLQNWREEFLKQADPGEHEACPF-VLLGNKI  131 (210)
Q Consensus        87 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~~~p~-ilv~~K~  131 (210)
                      .+++|... ++-+.......+..+...       ++|+ -+|+|+.
T Consensus       200 ~~~lVt~p-e~~~~~~~~r~~~~l~~~-------gi~~~~vVvN~v  237 (296)
T d1ihua1         200 RLVLVARL-QKSTLQEVARTHLELAAI-------GLKNQYLVINGV  237 (296)
T ss_dssp             EEEEEEES-CHHHHHHHHHHHHHHHHH-------TCCCEEEEEEEE
T ss_pred             eeeEecCc-chhHHHHHHHHHHHHHhc-------CCCceEEEEcCC
Confidence            56666544 355666666777776654       4555 5778996