Psyllid ID: psy2609

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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-
Protein Sequence
MLCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVKTTAQDNETKQTSRF
Secondary Structure (PSIPRED)
cccccccccccHHHHHHHcccEEccEEEEEEEccccccccEEEEcccccccccccHHHHHHHHHHccEEEEEEcccccHHHHHHHHHHHHHHcccEEEEEEcHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHcHHHHHHHcccEEEHHHHHHHHccccccccccEEEEEcccccccEEHEHHHHHEHcccEEEEEEcccccccccHHHHHHHHHcccccEEEEcHHHHHHHHHHHHHHHHHHHHccccEcEEEEEEcccccccEEcEEEEEEEEcccccccccc
Coil and Loop (DISEMBL)
mlcmvssymdsrkdeqergitmksSSISlyykdnkdtpeEYLINLidspghvdfssevSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVKttaqdnetkqtsrf
Flexible Loop (DISEMBL)
mlcmvssymdsrkdeqergitmksssislYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVkttaqdnetkqtsrf
Low Complexity Region (SEG)
MLCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVKTTAQDNETKQTSRF
Disordered region (IsUnstruct)
****************************LYYK****TPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQV*********************
Disordered Region (DISOPRED)
****VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVM*******************F
Disordered Region (DISEMBL)
********************TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAV***************
Disordered Region (DISPRO)
*LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVKTTAQDNETK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDETAVKTTAQDNETKQTSRF
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	161	2.2.26 [Sep-21-2011]
Q8C0D5	1127	Elongation factor Tu GTP-	yes	N/A	0.863	0.123	0.676	7e-53
Q7Z2Z2	1120	Elongation factor Tu GTP-	yes	N/A	0.863	0.124	0.676	2e-52
O74945	1000	Ribosome assembly protein	yes	N/A	0.832	0.134	0.582	4e-44
P53893	1110	Ribosome assembly protein	yes	N/A	0.931	0.135	0.531	6e-40
P15112	839	Elongation factor 2 OS=Di	no	N/A	0.782	0.150	0.518	5e-37
Q06193	840	Elongation factor 2 OS=En	N/A	N/A	0.795	0.152	0.525	1e-36
Q874B9	842	Elongation factor 2 OS=Ko	no	N/A	0.788	0.150	0.507	5e-36
A5DI11	842	Elongation factor 2 OS=Me	N/A	N/A	0.788	0.150	0.522	5e-36
Q6FYA7	842	Elongation factor 2 OS=Ca	no	N/A	0.788	0.150	0.514	5e-36
Q6BJ25	842	Elongation factor 2 OS=De	no	N/A	0.850	0.162	0.479	6e-36

>sp|Q8C0D5|ETUD1_MOUSE Elongation factor Tu GTP-binding domain-containing protein 1 OS=Mus musculus GN=Eftud1 PE=2 SV=1

 Score =  206 bits (523), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 96/142 (67%), Positives = 117/142 (82%), Gaps = 3/142 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL+Y +     EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct: 56  YMDSREDEQVRGITMKSSAISLHYAEGH---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct: 113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTT 149
           +NA+ G LF S+V++E A + T
Sbjct: 173 INALTGTLFTSKVLEERAERET 194

Involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with SBDS, triggers the GTP-dependent release of EIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating EIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. Has low intrinsic GTPase activity. GTPase activity is increased by contact with 60S ribosome subunits.
Mus musculus (taxid: 10090)

>sp|Q7Z2Z2|ETUD1_HUMAN Elongation factor Tu GTP-binding domain-containing protein 1 OS=Homo sapiens GN=EFTUD1 PE=1 SV=2

 Score =  204 bits (519), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 96/142 (67%), Positives = 116/142 (81%), Gaps = 3/142 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL+Y       EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct: 56  YMDSREDEQIRGITMKSSAISLHYATGN---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct: 113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTT 149
           +NA+ G LF S+V++E A + T
Sbjct: 173 INALTGTLFTSKVLEERAERET 194

Involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with SBDS, triggers the GTP-dependent release of EIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating EIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. Has low intrinsic GTPase activity. GTPase activity is increased by contact with 60S ribosome subunits.

Homo sapiens (taxid: 9606)

>sp|O74945|RIA1_SCHPO Ribosome assembly protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ria1 PE=3 SV=1

 Score =  176 bits (447), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 81/139 (58%), Positives = 111/139 (79%), Gaps = 5/139 (3%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYK-----DNKDTPEEYLINLIDSPGHVDFSSEVSTAV 62
           ++D R+DE  RGITMKSS+ISL++K     D K   ++YLINLIDSPGHVDFSSEVS+A 
Sbjct: 56  FLDFREDEITRGITMKSSAISLFFKVISQNDEKRVEKDYLINLIDSPGHVDFSSEVSSAS 115

Query: 63  RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLS 122
           RLCDG  ++VD VEG+C+QT   L+QAW+++I+ ILV+NK+DRLI E+KLSP++ + HL 
Sbjct: 116 RLCDGAFVLVDAVEGVCSQTITVLRQAWIDRIKVILVINKMDRLITELKLSPIEAHYHLL 175

Query: 123 QLLEQVNAVMGELFASQVM 141
           +L+EQVNAV+G  +  ++M
Sbjct: 176 RLVEQVNAVIGTFYTGELM 194

GTPase involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with sdo1, may trigger the GTP-dependent release of tif6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating tif6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. Inhibits GTPase activity of ribosome-bound EF-2.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 6

EC: .

EC: 5

EC: .

EC: -

>sp|P53893|RIA1_YEAST Ribosome assembly protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RIA1 PE=1 SV=1

 Score =  162 bits (411), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 84/158 (53%), Positives = 120/158 (75%), Gaps = 8/158 (5%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYK-----DNKDTP--EEYLINLIDSPGHVDFSSEVST 60
           ++D+R DEQ RGITM+SS+ISLY++     +  D P   E+L+NLIDSPGH+DFSSEVS 
Sbjct: 56  FLDARPDEQLRGITMESSAISLYFRVLRKQEGSDEPLVSEHLVNLIDSPGHIDFSSEVSA 115

Query: 61  AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVH 120
           A RLCDG +++VD VEG+C+QT   L+Q W EK++PILVLNKIDRLI E++L+P + Y+H
Sbjct: 116 ASRLCDGAVVLVDVVEGVCSQTVTVLRQCWTEKLKPILVLNKIDRLITELQLTPQEAYIH 175

Query: 121 LSQLLEQVNAVMGELFASQV-MDETAVKTTAQDNETKQ 157
           LS+++EQVN+V+G  FA++  +D+   +   + NE  +
Sbjct: 176 LSKVIEQVNSVIGSFFANERQLDDLFWREQLEKNENAE 213

GTPase involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with SDO1, may trigger the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. Inhibits GTPase activity of ribosome-bound EF-2.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 3

EC: .

EC: 6

EC: .

EC: 5

EC: .

EC: -

>sp|P15112|EF2_DICDI Elongation factor 2 OS=Dictyostelium discoideum GN=efbA PE=1 SV=2

 Score =  153 bits (386), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 69/133 (51%), Positives = 100/133 (75%), Gaps = 7/133 (5%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKD-------TPEEYLINLIDSPGHVDFSSEVST 60
           YM  R DEQERGIT+KSSS+SL+++  K+       T  E+LINLIDSPGHVDFSSEV+ 
Sbjct: 56  YMSCRADEQERGITIKSSSVSLHFEMPKEDKLPAGCTSHEFLINLIDSPGHVDFSSEVTA 115

Query: 61  AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVH 120
           A+R+ DG ++V+DCVEG+C QT+  L+QA  E+I+P+L +NK+DR +LE++L+  + Y+ 
Sbjct: 116 ALRVTDGALVVIDCVEGVCVQTETVLRQAVAERIKPVLFVNKVDRFLLELQLNTEEAYLS 175

Query: 121 LSQLLEQVNAVMG 133
             + +E VN ++G
Sbjct: 176 FRRAIESVNVIVG 188

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Dictyostelium discoideum (taxid: 44689)

>sp|Q06193|EF2_ENTHI Elongation factor 2 OS=Entamoeba histolytica GN=EF-2 PE=2 SV=1

 Score =  152 bits (383), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 71/135 (52%), Positives = 102/135 (75%), Gaps = 7/135 (5%)

Query: 5   VSSYMDSRKDEQERGITMKSSSISLYYK--DNKDTPEE-----YLINLIDSPGHVDFSSE 57
           V+ Y D+R DEQER IT+KS+SIS+YY+  D +D P +     +LINLIDSPGHVDFSSE
Sbjct: 53  VARYTDTRPDEQERCITIKSTSISMYYEIEDKEDIPADANGNGFLINLIDSPGHVDFSSE 112

Query: 58  VSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDI 117
           V+ A+R+ DG ++VVDCVEG+C QT+  L+QA  E+++PI+++NK+DR+ILE+K  P + 
Sbjct: 113 VTAALRVTDGALVVVDCVEGVCVQTETVLRQALTERVKPIVIINKVDRVILELKEEPEEA 172

Query: 118 YVHLSQLLEQVNAVM 132
           Y    + +E VN ++
Sbjct: 173 YQSFCRSIENVNVLI 187

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Entamoeba histolytica (taxid: 5759)

>sp|Q874B9|EF2_PICPA Elongation factor 2 OS=Komagataella pastoris GN=EFT1 PE=3 SV=1

 Score =  149 bits (377), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 69/136 (50%), Positives = 102/136 (75%), Gaps = 9/136 (6%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEE---------YLINLIDSPGHVDFSS 56
           + + D+RKDEQERGIT+KS++ISLY +   D  +E         +LINLIDSPGHVDFSS
Sbjct: 54  ARFTDTRKDEQERGITIKSTAISLYSEMGDDDVKEIKQKTEGNSFLINLIDSPGHVDFSS 113

Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVDCVEG+C QT+  L+QA  E+I+P++V+NK+DR +LE++++  D
Sbjct: 114 EVTAALRVTDGALVVVDCVEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVTKED 173

Query: 117 IYVHLSQLLEQVNAVM 132
           +Y   ++ +E VN V+
Sbjct: 174 LYQSFARTVESVNVVI 189

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Pichia pastoris (taxid: 4922)

>sp|A5DI11|EF2_PICGU Elongation factor 2 OS=Meyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) GN=EFT2 PE=3 SV=1

 Score =  149 bits (377), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 71/136 (52%), Positives = 102/136 (75%), Gaps = 9/136 (6%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYK-DNKDTPE--------EYLINLIDSPGHVDFSS 56
           + +MD+RKDEQERGIT+KS++ISLY   D+ D  E         +LINLIDSPGHVDFSS
Sbjct: 54  ARFMDTRKDEQERGITIKSTAISLYASMDDDDVKEIKQKTDGNSFLINLIDSPGHVDFSS 113

Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVD VEG+C QT+  L+QA  E+I+P+LV+NK+DR +LE+++S  D
Sbjct: 114 EVTAALRVTDGALVVVDTVEGVCVQTETVLRQALGERIKPVLVVNKVDRALLELQVSKED 173

Query: 117 IYVHLSQLLEQVNAVM 132
           +Y   ++ +E VN ++
Sbjct: 174 LYQTFARTVESVNVII 189

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Meyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) (taxid: 294746)

>sp|Q6FYA7|EF2_CANGA Elongation factor 2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=EFT1 PE=3 SV=1

 Score =  149 bits (377), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 70/136 (51%), Positives = 104/136 (76%), Gaps = 9/136 (6%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYY----KDNKDTPEE-----YLINLIDSPGHVDFSS 56
           + +MD+RKDEQERGIT+KS++ISLY     +D K+ P++     +LINLIDSPGHVDFSS
Sbjct: 54  ARFMDTRKDEQERGITIKSTAISLYSDLPEEDVKEIPQKSDGNSFLINLIDSPGHVDFSS 113

Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVD VEG+C QT+  L+QA  E+I+P++ +NK+DR +LE+++S  D
Sbjct: 114 EVTAALRVTDGALVVVDTVEGVCVQTETVLRQALGERIKPVVCINKVDRALLELQVSKED 173

Query: 117 IYVHLSQLLEQVNAVM 132
           +Y   S+ +E VN ++
Sbjct: 174 LYQSFSRTVESVNVII 189

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q6BJ25|EF2_DEBHA Elongation factor 2 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=EFT1 PE=3 SV=1

 Score =  149 bits (377), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 70/146 (47%), Positives = 104/146 (71%), Gaps = 9/146 (6%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEE---------YLINLIDSPGHVDFSS 56
           + + D+RKDEQERGIT+KS++ISLY     D  +E         +LINLIDSPGHVDFSS
Sbjct: 54  ARFTDTRKDEQERGITIKSTAISLYASMTDDDCKEIQQKTVGNSFLINLIDSPGHVDFSS 113

Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVDCVEG+C QT+  L+QA  E+I+P++++NK+DR +LE++++  D
Sbjct: 114 EVTAALRVTDGALVVVDCVEGVCVQTETVLRQALGERIKPVVIINKVDRALLELQVTKED 173

Query: 117 IYVHLSQLLEQVNAVMGELFASQVMD 142
           +Y   S+ +E VN ++     S + D
Sbjct: 174 LYQSFSRTIESVNVIISTYVDSSLGD 199

Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

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	161
147906372	310	elongation factor Tu GTP binding domain	0.881	0.458	0.724	9e-54
301621625	1125	PREDICTED: elongation factor Tu GTP-bind	0.881	0.126	0.717	2e-53
449663507	906	PREDICTED: elongation factor Tu GTP-bind	0.906	0.161	0.651	3e-52
242017118	950	translation elongation factor, putative	0.875	0.148	0.712	4e-52
443687077	1044	hypothetical protein CAPTEDRAFT_117244 [	0.881	0.136	0.662	7e-52
348580043	1126	PREDICTED: elongation factor Tu GTP-bind	0.857	0.122	0.692	1e-51
351704939	1127	Elongation factor Tu GTP-binding domain-	0.857	0.122	0.692	2e-51
291410449	1123	PREDICTED: elongation factor Tu GTP bind	0.863	0.123	0.676	2e-51
148674950	1180	elongation factor Tu GTP binding domain	0.863	0.117	0.676	3e-51
390339806	1139	PREDICTED: elongation factor Tu GTP-bind	0.838	0.118	0.688	3e-51

>gi|147906372|ref|NP_001084970.1| elongation factor Tu GTP binding domain containing 1 [Xenopus laevis] gi|47682854|gb|AAH70807.1| MGC83880 protein [Xenopus laevis]

 Score =  214 bits (545), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 105/145 (72%), Positives = 122/145 (84%), Gaps = 3/145 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           Y+DSR+DEQ RGITMKSS+ISL+YKD +   EEYLINLIDSPGHVDFSSEVSTAVRLCDG
Sbjct: 56  YLDSREDEQIRGITMKSSAISLHYKDGE---EEYLINLIDSPGHVDFSSEVSTAVRLCDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI E+KLS L+ + HL +LLEQ
Sbjct: 113 CIIVVDSVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLITELKLSSLEAHSHLQKLLEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTTAQD 152
           VNAV G LF S+V++E A K TA D
Sbjct: 173 VNAVTGSLFTSKVLEERAEKDTASD 197

Source: Xenopus laevis

Species: Xenopus laevis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|301621625|ref|XP_002940146.1| PREDICTED: elongation factor Tu GTP-binding domain-containing protein 1-like isoform 1 [Xenopus (Silurana) tropicalis]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 104/145 (71%), Positives = 122/145 (84%), Gaps = 3/145 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           Y+DSR+DEQ RGITMKSS+ISL+YKD++   EEYLINLIDSPGHVDFSSEVSTAVRLCDG
Sbjct: 56  YLDSREDEQIRGITMKSSAISLHYKDDE---EEYLINLIDSPGHVDFSSEVSTAVRLCDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI E+KLS L+ Y HL ++LEQ
Sbjct: 113 CIIVVDSVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLITELKLSCLEAYSHLQKILEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTTAQD 152
           VNAV G LF S+V++E A K  A D
Sbjct: 173 VNAVTGSLFTSKVLEERAEKDMASD 197

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|449663507|ref|XP_002168671.2| PREDICTED: elongation factor Tu GTP-binding domain-containing protein 1 [Hydra magnipapillata]

 Score =  209 bits (532), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 97/149 (65%), Positives = 124/149 (83%), Gaps = 3/149 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ+RGITMKSS+ISL Y  NK   + YL+NLIDSPGHVDFSSEVSTA+RLCDG
Sbjct: 53  YMDSREDEQQRGITMKSSAISLAYNTNK---QNYLVNLIDSPGHVDFSSEVSTAIRLCDG 109

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            +IV+D VEG+C QTQ  L+QAWLE I+P LV+NKIDRLI E+KLSP++ Y+ L +++EQ
Sbjct: 110 ALIVIDVVEGVCPQTQAVLRQAWLEGIKPCLVINKIDRLITEVKLSPMEAYLQLQKVVEQ 169

Query: 128 VNAVMGELFASQVMDETAVKTTAQDNETK 156
           VNAVMG LF++ VM+++ VK   +++ TK
Sbjct: 170 VNAVMGSLFSTSVMEQSNVKINTENSSTK 198

Source: Hydra magnipapillata

Species: Hydra magnipapillata

Genus: Hydra

Family: Hydridae

Order: Hydroida

Class: Hydrozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|242017118|ref|XP_002429039.1| translation elongation factor, putative [Pediculus humanus corporis] gi|212513894|gb|EEB16301.1| translation elongation factor, putative [Pediculus humanus corporis]

 Score =  209 bits (531), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 104/146 (71%), Positives = 120/146 (82%), Gaps = 5/146 (3%)

Query: 8   YMDSRKDEQERGITMKSSSISL-YYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
           YMDSRKDEQERGITMKSS+I+L ++  N      YL+NLIDSPGHVDFSSEVSTAVRLCD
Sbjct: 56  YMDSRKDEQERGITMKSSAITLLHFLKNT----FYLVNLIDSPGHVDFSSEVSTAVRLCD 111

Query: 67  GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
           G IIVVD VEG+CAQT+VALKQAWLE I+PILVLNKIDR I+E+KLSPLD Y  L Q+LE
Sbjct: 112 GAIIVVDVVEGVCAQTKVALKQAWLENIRPILVLNKIDRFIMELKLSPLDAYYKLVQVLE 171

Query: 127 QVNAVMGELFASQVMDETAVKTTAQD 152
           QVNA MGELFA  V+ +   K ++ +
Sbjct: 172 QVNATMGELFAKDVISKADGKASSDE 197

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443687077|gb|ELT90172.1| hypothetical protein CAPTEDRAFT_117244 [Capitella teleta]

 Score =  208 bits (529), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 96/145 (66%), Positives = 120/145 (82%), Gaps = 3/145 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL +   K   EE+LINLIDSPGH+DF+SEVSTAVRLCDG
Sbjct: 56  YMDSREDEQLRGITMKSSAISLQFNQGK---EEFLINLIDSPGHIDFTSEVSTAVRLCDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            I+VVDCVEG+C QTQ+ L+QAW E I+P+LVLNK+DRLI E+K+SPL+ ++HL Q+LE 
Sbjct: 113 AIVVVDCVEGVCPQTQMVLRQAWSESIKPVLVLNKLDRLITELKMSPLEAHLHLRQILEH 172

Query: 128 VNAVMGELFASQVMDETAVKTTAQD 152
           VN+V  ELFAS+VM +++  T   D
Sbjct: 173 VNSVTAELFASEVMQKSSASTGTGD 197

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|348580043|ref|XP_003475788.1| PREDICTED: elongation factor Tu GTP-binding domain-containing protein 1-like isoform 1 [Cavia porcellus]

 Score =  207 bits (526), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 99/143 (69%), Positives = 119/143 (83%), Gaps = 5/143 (3%)

Query: 8   YMDSRKDEQERGITMKSSSISLYY-KDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
           YMDSR+DEQ RGITMKSS+ISL+Y KDN    EEYLINLIDSPGHVDFSSEVSTAVR+CD
Sbjct: 56  YMDSREDEQIRGITMKSSAISLHYTKDN----EEYLINLIDSPGHVDFSSEVSTAVRICD 111

Query: 67  GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
           G IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LE
Sbjct: 112 GCIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILE 171

Query: 127 QVNAVMGELFASQVMDETAVKTT 149
           Q+NA+ G LF S+V++E A + T
Sbjct: 172 QINALTGSLFTSKVLEERAERET 194

Source: Cavia porcellus

Species: Cavia porcellus

Genus: Cavia

Family: Caviidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|351704939|gb|EHB07858.1| Elongation factor Tu GTP-binding domain-containing protein 1 [Heterocephalus glaber]

 Score =  207 bits (526), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 99/143 (69%), Positives = 119/143 (83%), Gaps = 5/143 (3%)

Query: 8   YMDSRKDEQERGITMKSSSISLYY-KDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
           YMDSR+DEQ RGITMKSS+ISL+Y KDN    EEYLINLIDSPGHVDFSSEVSTAVR+CD
Sbjct: 56  YMDSREDEQIRGITMKSSAISLHYTKDN----EEYLINLIDSPGHVDFSSEVSTAVRICD 111

Query: 67  GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
           G IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LE
Sbjct: 112 GCIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILE 171

Query: 127 QVNAVMGELFASQVMDETAVKTT 149
           Q+NA+ G LF S+V++E A + T
Sbjct: 172 QINALTGTLFTSKVLEERAERET 194

Source: Heterocephalus glaber

Species: Heterocephalus glaber

Genus: Heterocephalus

Family: Bathyergidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|291410449|ref|XP_002721510.1| PREDICTED: elongation factor Tu GTP binding domain containing 1 isoform 1 [Oryctolagus cuniculus]

 Score =  206 bits (525), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 96/142 (67%), Positives = 118/142 (83%), Gaps = 3/142 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL+Y + +    EYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct: 56  YMDSREDEQIRGITMKSSAISLHYTEGEG---EYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +PL+ Y HL  +LEQ
Sbjct: 113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPLEAYSHLKNILEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTT 149
           +NA+ G LF S+V++E A + T
Sbjct: 173 INALTGTLFTSKVLEERAERET 194

Source: Oryctolagus cuniculus

Species: Oryctolagus cuniculus

Genus: Oryctolagus

Family: Leporidae

Order: Lagomorpha

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|148674950|gb|EDL06897.1| elongation factor Tu GTP binding domain containing 1, isoform CRA_a [Mus musculus]

 Score =  206 bits (524), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 96/142 (67%), Positives = 117/142 (82%), Gaps = 3/142 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL+Y +     EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct: 56  YMDSREDEQVRGITMKSSAISLHYAEGH---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct: 113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query: 128 VNAVMGELFASQVMDETAVKTT 149
           +NA+ G LF S+V++E A + T
Sbjct: 173 INALTGTLFTSKVLEERAERET 194

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|390339806|ref|XP_784679.3| PREDICTED: elongation factor Tu GTP-binding domain-containing protein 1 [Strongylocentrotus purpuratus]

 Score =  206 bits (523), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 95/138 (68%), Positives = 119/138 (86%), Gaps = 3/138 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           YMDSR+DEQ RGITMKSS+ISL Y +   TPEEYL+NLIDSPGHVDFSSEVSTAVRLC+G
Sbjct: 56  YMDSREDEQLRGITMKSSAISLLYSN---TPEEYLVNLIDSPGHVDFSSEVSTAVRLCEG 112

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            ++V+D VEG+C QT V L+QAWLE I+P LVLNKIDRLI E+K +P++ ++HL Q+LEQ
Sbjct: 113 ALVVIDVVEGVCPQTHVVLRQAWLEHIKPCLVLNKIDRLISELKYTPMEAHLHLQQVLEQ 172

Query: 128 VNAVMGELFASQVMDETA 145
           VNAV+G L+AS V+++T+
Sbjct: 173 VNAVVGNLYASHVLEKTS 190

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

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	161
UNIPROTKB|F1RID1	493	EFTUD1 "Uncharacterized protei	0.863	0.281	0.690	6e-48
UNIPROTKB|E1BYW6	1128	EFTUD1 "Uncharacterized protei	0.919	0.131	0.644	6.3e-47
UNIPROTKB|E2R2G9	1128	EFTUD1 "Uncharacterized protei	0.906	0.129	0.651	6.3e-47
MGI|MGI:2141969	1127	Eftud1 "elongation factor Tu G	0.863	0.123	0.676	1.3e-46
UNIPROTKB|Q7Z2Z2	1120	EFTUD1 "Elongation factor Tu G	0.913	0.131	0.649	2.1e-46
UNIPROTKB|E1BH79	1129	EFTUD1 "Uncharacterized protei	0.838	0.119	0.681	9.6e-46
RGD|1306521	629	Eftud1 "elongation factor Tu G	0.913	0.233	0.625	4.4e-45
FB|FBgn0053158	1033	CG33158 [Drosophila melanogast	0.894	0.139	0.628	4e-44
CGD|CAL0001869	1044	RIA1 [Candida albicans (taxid:	0.844	0.130	0.587	5.3e-41
UNIPROTKB|G4N5M6	1073	MGG_05265 "Elongation factor 2	0.844	0.126	0.594	7.3e-41

UNIPROTKB|F1RID1 EFTUD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 501 (181.4 bits), Expect = 6.0e-48, P = 6.0e-48
 Identities = 98/142 (69%), Positives = 118/142 (83%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             YMDSR+DEQ RGITMKSS+ISL+Y   KD  EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct:    56 YMDSREDEQIRGITMKSSAISLHYA--KDD-EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct:   113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query:   128 VNAVMGELFASQVMDETAVKTT 149
             +NA+ G LF S+V++E A + T
Sbjct:   173 INALTGTLFTSKVLEERAERVT 194

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|E1BYW6 EFTUD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 502 (181.8 bits), Expect = 6.3e-47, P = 6.3e-47
 Identities = 98/152 (64%), Positives = 123/152 (80%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             Y+DSR+DEQ RGITMKSS+ISL+++      +EYLINLIDSPGHVDFSSEVSTAVRLCDG
Sbjct:    56 YLDSREDEQVRGITMKSSAISLHFEKGG---QEYLINLIDSPGHVDFSSEVSTAVRLCDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+KL+P + Y+HL  +LEQ
Sbjct:   113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKLTPQEAYMHLKNILEQ 172

Query:   128 VNAVMGELFASQVMDETAVKTTAQDNETKQTS 159
             +NAV G LF S+V++E A K  A+   +  T+
Sbjct:   173 INAVTGSLFTSKVLEERAEKE-AESESSSDTA 203

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0042256 "mature ribosome assembly" evidence=IEA

GO:0043022 "ribosome binding" evidence=IEA

UNIPROTKB|E2R2G9 EFTUD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 502 (181.8 bits), Expect = 6.3e-47, P = 6.3e-47
 Identities = 99/152 (65%), Positives = 124/152 (81%)

Query:     8 YMDSRKDEQERGITMKSSSISLYY-KDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
             YMDSR+DEQ RGITMKSS+ISL+Y KDN+D    YLINLIDSPGHVDFSSEVSTAVR+CD
Sbjct:    56 YMDSREDEQVRGITMKSSAISLHYAKDNED----YLINLIDSPGHVDFSSEVSTAVRICD 111

Query:    67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
             G IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NK+DRLI+E+K +P + Y HL  +LE
Sbjct:   112 GCIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKLDRLIVELKFTPQEAYSHLKNILE 171

Query:   127 QVNAVMGELFASQVMDETAVKTT-AQDNETKQ 157
             Q+NA+ G LF S+V++E A + T +Q N + +
Sbjct:   172 QINALTGTLFTSKVLEERAERETESQVNPSSE 203

GO:0043022 "ribosome binding" evidence=IEA

GO:0042256 "mature ribosome assembly" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

MGI|MGI:2141969 Eftud1 "elongation factor Tu GTP binding domain containing 1" [Mus musculus (taxid:10090)]

 Score = 499 (180.7 bits), Expect = 1.3e-46, P = 1.3e-46
 Identities = 96/142 (67%), Positives = 117/142 (82%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             YMDSR+DEQ RGITMKSS+ISL+Y +     EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct:    56 YMDSREDEQVRGITMKSSAISLHYAEGH---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct:   113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query:   128 VNAVMGELFASQVMDETAVKTT 149
             +NA+ G LF S+V++E A + T
Sbjct:   173 INALTGTLFTSKVLEERAERET 194

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0006412 "translation" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0042256 "mature ribosome assembly" evidence=ISO

GO:0043022 "ribosome binding" evidence=ISO

UNIPROTKB|Q7Z2Z2 EFTUD1 "Elongation factor Tu GTP-binding domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 497 (180.0 bits), Expect = 2.1e-46, P = 2.1e-46
 Identities = 98/151 (64%), Positives = 120/151 (79%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             YMDSR+DEQ RGITMKSS+ISL+Y       EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct:    56 YMDSREDEQIRGITMKSSAISLHYATGN---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct:   113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query:   128 VNAVMGELFASQVMDETAVKTT-AQDNETKQ 157
             +NA+ G LF S+V++E A + T +Q N   +
Sbjct:   173 INALTGTLFTSKVLEERAERETESQVNPNSE 203

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0042256 "mature ribosome assembly" evidence=IMP

GO:0043022 "ribosome binding" evidence=IMP

UNIPROTKB|E1BH79 EFTUD1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 491 (177.9 bits), Expect = 9.6e-46, P = 9.6e-46
 Identities = 94/138 (68%), Positives = 115/138 (83%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             YMDSR+DEQ RGITMKSS+ISL+Y +     +EYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct:    56 YMDSREDEQVRGITMKSSAISLHYAEGD---KEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L+QAWLE I+P+LV+NKIDRLI+E+K +P + Y HL  +LEQ
Sbjct:   113 CIIVVDAVEGVCPQTQAVLRQAWLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNILEQ 172

Query:   128 VNAVMGELFASQVMDETA 145
             +NA+ G LF S+V++E A
Sbjct:   173 INALTGTLFTSKVLEERA 190

GO:0043022 "ribosome binding" evidence=IEA

GO:0042256 "mature ribosome assembly" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

RGD|1306521 Eftud1 "elongation factor Tu GTP binding domain containing 1" [Rattus norvegicus (taxid:10116)]

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 95/152 (62%), Positives = 118/152 (77%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
             YMDSR+DEQ RGITMKSS+ISL+Y +     EEYLINLIDSPGHVDFSSEVSTAVR+CDG
Sbjct:    56 YMDSREDEQVRGITMKSSAISLHYAEGS---EEYLINLIDSPGHVDFSSEVSTAVRICDG 112

Query:    68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
              IIVVD VEG+C QTQ  L QA LE I+P+LV+NKIDRLI+E+K +P + Y HL  +  Q
Sbjct:   113 CIIVVDAVEGVCPQTQAVLXQAXLENIRPVLVINKIDRLIVELKFTPQEAYSHLKNIXXQ 172

Query:   128 VNAVMGELFASQVMDETAVKTTAQDNETKQTS 159
             +NA+ G LF S+V++E A + T  +++ K  S
Sbjct:   173 INALTGTLFTSKVLEERAERET--ESQAKSHS 202

GO:0003924 "GTPase activity" evidence=IEA;ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0042256 "mature ribosome assembly" evidence=ISO

GO:0043022 "ribosome binding" evidence=ISO

FB|FBgn0053158 CG33158 [Drosophila melanogaster (taxid:7227)]

 Score = 475 (172.3 bits), Expect = 4.0e-44, P = 4.0e-44
 Identities = 93/148 (62%), Positives = 120/148 (81%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKDNKDTP--EEYLINLIDSPGHVDFSSEVSTAVRLC 65
             Y+D+R DEQERGITMKSSSISLYY++ ++     +YLINLIDSPGHVDFSSEVSTAVRLC
Sbjct:    56 YLDNRSDEQERGITMKSSSISLYYQEAEEMAGNPDYLINLIDSPGHVDFSSEVSTAVRLC 115

Query:    66 DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
             DG I+VVD VEG+  QT+  L+Q + E+++P+LVLNK+DRLILE ++ PLD Y HL Q+L
Sbjct:   116 DGAIVVVDVVEGVGPQTRACLRQIYEEQLKPVLVLNKLDRLILEKQMDPLDAYFHLCQVL 175

Query:   126 EQVNAVMGELFASQVMDETAVKTTAQDN 153
             EQVNAV+G +FAS ++ +  +  T +DN
Sbjct:   176 EQVNAVLGSIFASDILAKEDI--TKKDN 201

GO:0006414 "translational elongation" evidence=ISS

GO:0005850 "eukaryotic translation initiation factor 2 complex" evidence=ISS

GO:0003746 "translation elongation factor activity" evidence=ISS

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

CGD|CAL0001869 RIA1 [Candida albicans (taxid:5476)]

 Score = 446 (162.1 bits), Expect = 5.3e-41, P = 5.3e-41
 Identities = 84/143 (58%), Positives = 114/143 (79%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYK-----DNKDTPE--EYLINLIDSPGHVDFSSEVST 60
             Y+DSR+DEQ RGITM+SS+ISLY+K          PE  E+LINLIDSPGH+DFSSEVST
Sbjct:    55 YLDSREDEQLRGITMESSAISLYFKVMRLQQGSQEPEVHEHLINLIDSPGHIDFSSEVST 114

Query:    61 AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVH 120
             + RLCDG +++VD VEG+C+QT   L+Q W++K++P+LV+NKIDRLI E KLSPL+ Y H
Sbjct:   115 SSRLCDGAVVLVDVVEGVCSQTVNVLRQCWIDKLKPLLVINKIDRLITEWKLSPLEAYQH 174

Query:   121 LSQLLEQVNAVMGELFASQVMDE 143
             +S+++EQVN+V+G  FA   +++
Sbjct:   175 ISRIIEQVNSVIGSFFAGDRLED 197

GO:0005829 "cytosol" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0042256 "mature ribosome assembly" evidence=IEA

UNIPROTKB|G4N5M6 MGG_05265 "Elongation factor 2" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 445 (161.7 bits), Expect = 7.3e-41, P = 7.3e-41
 Identities = 85/143 (59%), Positives = 112/143 (78%)

Query:     8 YMDSRKDEQERGITMKSSSISLYYKD-NKDTPE------EYLINLIDSPGHVDFSSEVST 60
             YMDSR DEQ RGITM+SS+ISL +    + +P+      +YLINLIDSPGH+DFSSEVST
Sbjct:    56 YMDSRPDEQARGITMESSAISLLFSMLRRSSPDAAPVAADYLINLIDSPGHIDFSSEVST 115

Query:    61 AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVH 120
             A RLCDG +++VD VEG+C+QT   L+Q W EK++P+LV+NKIDRL+ E+K+SP +  VH
Sbjct:   116 ASRLCDGAVVLVDAVEGVCSQTVTVLRQTWTEKLKPLLVINKIDRLVTELKMSPSEANVH 175

Query:   121 LSQLLEQVNAVMGELFASQVMDE 143
             LS++LEQVNAV+G  F  + M+E
Sbjct:   176 LSKILEQVNAVLGSFFQGERMEE 198

GO:0005575 "cellular_component" evidence=ND

GO:0043581 "mycelium development" evidence=IEP

---

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)
O74945	RIA1_SCHPO	3, ., 6, ., 5, ., -	0.5827	0.8322	0.134	yes	N/A
P53893	RIA1_YEAST	3, ., 6, ., 5, ., -	0.5316	0.9316	0.1351	yes	N/A
Q8SQT7	EF2_ENCCU	No assigned EC number	0.5323	0.7950	0.1505	yes	N/A
Q8C0D5	ETUD1_MOUSE	No assigned EC number	0.6760	0.8633	0.1233	yes	N/A
Q7Z2Z2	ETUD1_HUMAN	No assigned EC number	0.6760	0.8633	0.1241	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	161
cd01885	218	cd01885, EF2, Elongation Factor 2 (EF2) in archaea	3e-79
PTZ00416	836	PTZ00416, PTZ00416, elongation factor 2; Provision	2e-54
PLN00116	843	PLN00116, PLN00116, translation elongation factor	4e-49
cd04167	213	cd04167, Snu114p, Snu114p, a spliceosome protein,	9e-48
PRK07560	731	PRK07560, PRK07560, elongation factor EF-2; Review	9e-42
COG0480	697	COG0480, FusA, Translation elongation factors (GTP	1e-41
pfam00009	184	pfam00009, GTP_EFTU, Elongation factor Tu GTP bind	2e-39
TIGR00490	720	TIGR00490, aEF-2, translation elongation factor aE	1e-32
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	7e-31
cd01890	179	cd01890, LepA, LepA also known as Elongation Facto	2e-30
cd01891	194	cd01891, TypA_BipA, Tyrosine phosphorylated protei	2e-27
COG0481	603	COG0481, LepA, Membrane GTPase LepA [Cell envelope	2e-26
TIGR01393	595	TIGR01393, lepA, GTP-binding protein LepA	7e-26
PRK05433	600	PRK05433, PRK05433, GTP-binding protein LepA; Prov	3e-25
PRK13351	687	PRK13351, PRK13351, elongation factor G; Reviewed	2e-23
TIGR01394	594	TIGR01394, TypA_BipA, GTP-binding protein TypA/Bip	2e-23
cd01886	270	cd01886, EF-G, Elongation factor G (EF-G) family i	2e-23
COG1217	603	COG1217, TypA, Predicted membrane GTPase involved	1e-22
PRK12740	668	PRK12740, PRK12740, elongation factor G; Reviewed	6e-21
cd04168	237	cd04168, TetM_like, Tet(M)-like family includes Te	7e-21
TIGR00484	689	TIGR00484, EF-G, translation elongation factor EF-	7e-20
PRK12739	691	PRK12739, PRK12739, elongation factor G; Reviewed	1e-17
PRK10218	607	PRK10218, PRK10218, GTP-binding protein; Provision	2e-17
cd04170	268	cd04170, EF-G_bact, Elongation factor G (EF-G) fam	1e-16
PRK00007	693	PRK00007, PRK00007, elongation factor G; Reviewed	3e-16
cd04169	268	cd04169, RF3, Release Factor 3 (RF3) protein invol	3e-14
COG4108	528	COG4108, PrfC, Peptide chain release factor RF-3 [	1e-12
PRK00741	526	PRK00741, prfC, peptide chain release factor 3; Pr	8e-12
COG3276	447	COG3276, SelB, Selenocysteine-specific translation	3e-10
TIGR00503	527	TIGR00503, prfC, peptide chain release factor 3	6e-10
cd04171	170	cd04171, SelB, SelB, the dedicated elongation fact	7e-09
TIGR00475	581	TIGR00475, selB, selenocysteine-specific elongatio	3e-08
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	3e-08
PRK12317	425	PRK12317, PRK12317, elongation factor 1-alpha; Rev	4e-08
COG5256	428	COG5256, TEF1, Translation elongation factor EF-1a	8e-08
cd01889	192	cd01889, SelB_euk, SelB, the dedicated elongation	1e-07
TIGR00483	426	TIGR00483, EF-1_alpha, translation elongation fact	3e-07
cd04166	209	cd04166, CysN_ATPS, CysN, together with protein Cy	8e-07
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	5e-06
cd01883	219	cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1	7e-06
TIGR00491	590	TIGR00491, aIF-2, translation initiation factor aI	9e-06
COG0532	509	COG0532, InfB, Translation initiation factor 2 (IF	1e-05
PTZ00141	446	PTZ00141, PTZ00141, elongation factor 1- alpha; Pr	2e-05
TIGR00485	394	TIGR00485, EF-Tu, translation elongation factor TU	2e-05
cd01888	197	cd01888, eIF2_gamma, Gamma subunit of initiation f	4e-05
TIGR00487	587	TIGR00487, IF-2, translation initiation factor IF-	4e-05
TIGR03680	406	TIGR03680, eif2g_arch, translation initiation fact	4e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	5e-05
CHL00071	409	CHL00071, tufA, elongation factor Tu	5e-05
TIGR02034	406	TIGR02034, CysN, sulfate adenylyltransferase, larg	6e-05
COG0050	394	COG0050, TufB, GTPases - translation elongation fa	1e-04
PLN00043	447	PLN00043, PLN00043, elongation factor 1-alpha; Pro	1e-04
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	2e-04
PRK12736	394	PRK12736, PRK12736, elongation factor Tu; Reviewed	2e-04
COG2895	431	COG2895, CysN, GTPases - Sulfate adenylate transfe	2e-04
PRK04004	586	PRK04004, PRK04004, translation initiation factor	3e-04
PLN03126	478	PLN03126, PLN03126, Elongation factor Tu; Provisio	4e-04
PRK04000	411	PRK04000, PRK04000, translation initiation factor	5e-04
PLN03127	447	PLN03127, PLN03127, Elongation factor Tu; Provisio	5e-04
cd01884	195	cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-b	7e-04
COG5257	415	COG5257, GCD11, Translation initiation factor 2, g	0.003

>gnl|CDD|206672 cd01885, EF2, Elongation Factor 2 (EF2) in archaea and eukarya

 Score =  233 bits (597), Expect = 3e-79
 Identities = 79/138 (57%), Positives = 107/138 (77%), Gaps = 2/138 (1%)

Query: 8   YMDSRKDEQERGITMKSSSISLY--YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           Y+D+R+DEQERGIT+KSS+ISLY  Y++ K    +YLINLIDSPGHVDFSSEV+ A+RL 
Sbjct: 37  YLDTREDEQERGITIKSSAISLYFEYEEEKMDGNDYLINLIDSPGHVDFSSEVTAALRLT 96

Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
           DG ++VVD VEG+C QT+  L+QA  E+++P+LV+NKIDRLILE+KLSP + Y  L +++
Sbjct: 97  DGALVVVDAVEGVCVQTETVLRQALEERVKPVLVINKIDRLILELKLSPEEAYQRLLRIV 156

Query: 126 EQVNAVMGELFASQVMDE 143
           E VNA++      +   E
Sbjct: 157 EDVNAIIETYAPEEFKQE 174

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. Second, the protein can be post-translationally modified by ADP-ribosylation. Various bacterial toxins perform this reaction after modification of a specific histidine residue to diphthamide, but there is evidence for endogenous ADP ribosylase activity. Similar to the bacterial toxins, it is presumed that modification by the endogenous enzyme also inhibits eEF2 activity. Length = 218

>gnl|CDD|240409 PTZ00416, PTZ00416, elongation factor 2; Provisional

 Score =  182 bits (465), Expect = 2e-54
 Identities = 70/129 (54%), Positives = 100/129 (77%), Gaps = 3/129 (2%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYK---DNKDTPEEYLINLIDSPGHVDFSSEVSTAVRL 64
           + D+R DEQERGIT+KS+ ISLYY+   ++ D  + +LINLIDSPGHVDFSSEV+ A+R+
Sbjct: 56  FTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRV 115

Query: 65  CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQL 124
            DG ++VVDCVEG+C QT+  L+QA  E+I+P+L +NK+DR ILE++L P +IY +  + 
Sbjct: 116 TDGALVVVDCVEGVCVQTETVLRQALQERIRPVLFINKVDRAILELQLDPEEIYQNFVKT 175

Query: 125 LEQVNAVMG 133
           +E VN ++ 
Sbjct: 176 IENVNVIIA 184

Length = 836

>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit; Provisional

 Score =  168 bits (427), Expect = 4e-49
 Identities = 68/134 (50%), Positives = 94/134 (70%), Gaps = 9/134 (6%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYK----DNKDTP-----EEYLINLIDSPGHVDFSSEV 58
             D+R DE ERGIT+KS+ ISLYY+      KD        EYLINLIDSPGHVDFSSEV
Sbjct: 56  MTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEV 115

Query: 59  STAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIY 118
           + A+R+ DG ++VVDC+EG+C QT+  L+QA  E+I+P+L +NK+DR  LE+++   + Y
Sbjct: 116 TAALRITDGALVVVDCIEGVCVQTETVLRQALGERIRPVLTVNKMDRCFLELQVDGEEAY 175

Query: 119 VHLSQLLEQVNAVM 132
              S+++E  N +M
Sbjct: 176 QTFSRVIENANVIM 189

Length = 843

>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase

 Score =  153 bits (389), Expect = 9e-48
 Identities = 64/122 (52%), Positives = 90/122 (73%), Gaps = 2/122 (1%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           Y D+RKDEQERGI++KS+ ISL  +D+K     YLIN+ID+PGHV+F  EV+ A+RLCDG
Sbjct: 40  YTDTRKDEQERGISIKSNPISLVLEDSKGK--SYLINIIDTPGHVNFMDEVAAALRLCDG 97

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            ++VVD VEG+ + T+  ++ A  E +  +LV+NKIDRLILE+KL P D Y  L   +++
Sbjct: 98  VVLVVDVVEGLTSVTERLIRHAIQEGLPMVLVINKIDRLILELKLPPTDAYYKLRHTIDE 157

Query: 128 VN 129
           +N
Sbjct: 158 IN 159

Snu114p subfamily. 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. Length = 213

>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed

 Score =  147 bits (373), Expect = 9e-42
 Identities = 57/125 (45%), Positives = 90/125 (72%), Gaps = 7/125 (5%)

Query: 8   YMDSRKDEQERGITMKSSSISLY--YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
            +D  ++EQ RGIT+K++++S+   Y+      +EYLINLID+PGHVDF  +V+ A+R  
Sbjct: 57  ALDFDEEEQARGITIKAANVSMVHEYEG-----KEYLINLIDTPGHVDFGGDVTRAMRAV 111

Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
           DG I+VVD VEG+  QT+  L+QA  E+++P+L +NK+DRLI E+KL+P ++   L +++
Sbjct: 112 DGAIVVVDAVEGVMPQTETVLRQALRERVKPVLFINKVDRLIKELKLTPQEMQQRLLKII 171

Query: 126 EQVNA 130
           + VN 
Sbjct: 172 KDVNK 176

Length = 731

>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

 Score =  147 bits (372), Expect = 1e-41
 Identities = 50/127 (39%), Positives = 75/127 (59%), Gaps = 6/127 (4%)

Query: 7   SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
           + MD  + EQERGIT+ S++ +L++K       +Y INLID+PGHVDF+ EV  ++R+ D
Sbjct: 48  ATMDWMEQEQERGITITSAATTLFWKG------DYRINLIDTPGHVDFTIEVERSLRVLD 101

Query: 67  GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
           G ++VVD VEG+  QT+   +QA    +  IL +NK+DRL  +  L    +   L     
Sbjct: 102 GAVVVVDAVEGVEPQTETVWRQADKYGVPRILFVNKMDRLGADFYLVVEQLKERLGANPV 161

Query: 127 QVNAVMG 133
            V   +G
Sbjct: 162 PVQLPIG 168

Length = 697

>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain

 Score =  131 bits (331), Expect = 2e-39
 Identities = 42/100 (42%), Positives = 60/100 (60%), Gaps = 7/100 (7%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  K+E+ERGIT+K +++S   K         LIN+ID+PGHVDF+ E+       DG
Sbjct: 40  VLDKLKEERERGITIKIAAVSFETKK-------RLINIIDTPGHVDFTKEMIRGASQADG 92

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI 107
            I+VVD VEG+  QT+  L  A    +  I+ +NKIDR+ 
Sbjct: 93  AILVVDAVEGVMPQTREHLLLAKTLGVPIIVFINKIDRVD 132

This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Length = 184

>gnl|CDD|129581 TIGR00490, aEF-2, translation elongation factor aEF-2

 Score =  121 bits (305), Expect = 1e-32
 Identities = 59/142 (41%), Positives = 95/142 (66%), Gaps = 7/142 (4%)

Query: 8   YMDSRKDEQERGITMKSSSISLY--YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           Y+D  + EQERGIT+ ++++S+   Y+ N     EYLINLID+PGHVDF  +V+ A+R  
Sbjct: 56  YLDFDEQEQERGITINAANVSMVHEYEGN-----EYLINLIDTPGHVDFGGDVTRAMRAV 110

Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
           DG I+VV  VEG+  QT+  L+QA  E ++P+L +NK+DRLI E+KL+P ++     +++
Sbjct: 111 DGAIVVVCAVEGVMPQTETVLRQALKENVKPVLFINKVDRLINELKLTPQELQERFIKII 170

Query: 126 EQVNAVMGELFASQVMDETAVK 147
            +VN ++  +   +  D+  V+
Sbjct: 171 TEVNKLIKAMAPEEFRDKWKVR 192

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 [Protein synthesis, Translation factors]. Length = 720

>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family primarily contains translation initiation, elongation and release factors

 Score =  109 bits (274), Expect = 7e-31
 Identities = 38/102 (37%), Positives = 57/102 (55%), Gaps = 7/102 (6%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           ++D+ K+E+ERGIT+K+  +   +           IN ID+PGH DFS E    +   DG
Sbjct: 36  FLDTLKEERERGITIKTGVVEFEWPK-------RRINFIDTPGHEDFSKETVRGLAQADG 88

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE 109
            ++VVD  EG+  QT+  L  A    +  I+ +NKIDR+  E
Sbjct: 89  ALLVVDANEGVEPQTREHLNIALAGGLPIIVAVNKIDRVGEE 130

The GTP translation factor 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. Length = 183

>gnl|CDD|206677 cd01890, LepA, LepA also known as Elongation Factor 4 (EF4)

 Score =  108 bits (271), Expect = 2e-30
 Identities = 47/101 (46%), Positives = 66/101 (65%), Gaps = 2/101 (1%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M    +DS   E+ERGIT+K+ ++ L+YK      EEYL+NLID+PGHVDFS EVS ++ 
Sbjct: 32  MKEQVLDSMDLERERGITIKAQAVRLFYKA--KDGEEYLLNLIDTPGHVDFSYEVSRSLA 89

Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            C+G ++VVD  +G+ AQT      A    ++ I V+NKID
Sbjct: 90  ACEGALLVVDATQGVEAQTLANFYLALENNLEIIPVINKID 130

LepA (also known as elongation factor 4, EF4) belongs to the GTPase family 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. Length = 179

>gnl|CDD|206678 cd01891, TypA_BipA, Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases

 Score =  100 bits (252), Expect = 2e-27
 Identities = 42/97 (43%), Positives = 61/97 (62%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MDS   E+ERGIT+ + + ++ YKD         IN+ID+PGH DF  EV   + + DG 
Sbjct: 40  MDSNDLERERGITILAKNTAITYKD-------TKINIIDTPGHADFGGEVERVLSMVDGV 92

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           +++VD  EG   QT+  LK+A    ++PI+V+NKIDR
Sbjct: 93  LLLVDASEGPMPQTRFVLKKALEAGLKPIVVINKIDR 129

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. coli has been shown to be phosphorylated on a tyrosine residue, while BipA from Salmonella and from E. coli K12 strains is not phosphorylated under the conditions assayed. The phosphorylation apparently modifies the rate of nucleotide hydrolysis, with the phosphorylated form showing greatly increased GTPase activity. Length = 194

>gnl|CDD|223557 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

 Score =  103 bits (259), Expect = 2e-26
 Identities = 46/101 (45%), Positives = 66/101 (65%), Gaps = 2/101 (1%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M +  +DS   E+ERGIT+K+ ++ L YK      E Y++NLID+PGHVDFS EVS ++ 
Sbjct: 41  MRAQVLDSMDIERERGITIKAQAVRLNYKAKDG--ETYVLNLIDTPGHVDFSYEVSRSLA 98

Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            C+G ++VVD  +G+ AQT   +  A    ++ I VLNKID
Sbjct: 99  ACEGALLVVDASQGVEAQTLANVYLALENNLEIIPVLNKID 139

Length = 603

>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA

 Score =  102 bits (255), Expect = 7e-26
 Identities = 45/101 (44%), Positives = 65/101 (64%), Gaps = 2/101 (1%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M    +DS   E+ERGIT+K+ ++ L YK      E Y++NLID+PGHVDFS EVS ++ 
Sbjct: 35  MREQVLDSMDLERERGITIKAQAVRLNYKAKDG--ETYVLNLIDTPGHVDFSYEVSRSLA 92

Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            C+G +++VD  +GI AQT   +  A    ++ I V+NKID
Sbjct: 93  ACEGALLLVDAAQGIEAQTLANVYLALENDLEIIPVINKID 133

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 [Unknown function, General]. Length = 595

>gnl|CDD|235462 PRK05433, PRK05433, GTP-binding protein LepA; Provisional

 Score =  100 bits (251), Expect = 3e-25
 Identities = 49/104 (47%), Positives = 68/104 (65%), Gaps = 8/104 (7%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M +  +DS   E+ERGIT+K+ ++ L YK      E Y++NLID+PGHVDFS EVS ++ 
Sbjct: 39  MKAQVLDSMDLERERGITIKAQAVRLNYKAKDG--ETYILNLIDTPGHVDFSYEVSRSLA 96

Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLE---KIQPILVLNKID 104
            C+G ++VVD  +G+ AQT   +  A LE   +I P  VLNKID
Sbjct: 97  ACEGALLVVDASQGVEAQTLANVYLA-LENDLEIIP--VLNKID 137

Length = 600

>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed

 Score = 95.4 bits (238), Expect = 2e-23
 Identities = 38/97 (39%), Positives = 60/97 (61%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
            D    EQERGIT++S++ S  + +       + INLID+PGH+DF+ EV  ++R+ DG 
Sbjct: 48  TDWMPQEQERGITIESAATSCDWDN-------HRINLIDTPGHIDFTGEVERSLRVLDGA 100

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           ++V D V G+  QT+   +QA    I  ++ +NK+DR
Sbjct: 101 VVVFDAVTGVQPQTETVWRQADRYGIPRLIFINKMDR 137

Length = 687

>gnl|CDD|233394 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA

 Score = 95.4 bits (238), Expect = 2e-23
 Identities = 40/97 (41%), Positives = 60/97 (61%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MDS   E+ERGIT+ + + ++ Y   K       IN++D+PGH DF  EV   + + DG 
Sbjct: 39  MDSNDLERERGITILAKNTAIRYNGTK-------INIVDTPGHADFGGEVERVLGMVDGV 91

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           +++VD  EG   QT+  LK+A    ++PI+V+NKIDR
Sbjct: 92  LLLVDASEGPMPQTRFVLKKALELGLKPIVVINKIDR 128

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 [Regulatory functions, Other, Cellular processes, Adaptations to atypical conditions, Protein synthesis, Translation factors]. Length = 594

>gnl|CDD|206673 cd01886, EF-G, Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis

 Score = 92.6 bits (231), Expect = 2e-23
 Identities = 39/98 (39%), Positives = 62/98 (63%), Gaps = 7/98 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + E+ERGIT++S++ + ++KD       + IN+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 39  MDWMEQERERGITIQSAATTCFWKD-------HRINIIDTPGHVDFTIEVERSLRVLDGA 91

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           + V D V G+  QT+   +QA    +  I  +NK+DR 
Sbjct: 92  VAVFDAVAGVQPQTETVWRQADRYGVPRIAFVNKMDRT 129

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 contains both eukaryotic and bacterial members. Length = 270

>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

 Score = 92.7 bits (231), Expect = 1e-22
 Identities = 39/97 (40%), Positives = 59/97 (60%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MDS   E+ERGIT+ + + ++ Y           IN++D+PGH DF  EV   + + DG 
Sbjct: 43  MDSNDLEKERGITILAKNTAVNYNG-------TRINIVDTPGHADFGGEVERVLSMVDGV 95

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           +++VD  EG   QT+  LK+A    ++PI+V+NKIDR
Sbjct: 96  LLLVDASEGPMPQTRFVLKKALALGLKPIVVINKIDR 132

Length = 603

>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed

 Score = 87.9 bits (219), Expect = 6e-21
 Identities = 40/100 (40%), Positives = 64/100 (64%), Gaps = 7/100 (7%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD   +E+ERGI++ S++ +  +K +K       INLID+PGHVDF+ EV  A+R+ 
Sbjct: 32  TTTMDFMPEERERGISITSAATTCEWKGHK-------INLIDTPGHVDFTGEVERALRVL 84

Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG ++VV  V G+  QT+   +QA    +  I+ +NK+DR
Sbjct: 85  DGAVVVVCAVGGVEPQTETVWRQAEKYGVPRIIFVNKMDR 124

Length = 668

>gnl|CDD|206731 cd04168, TetM_like, Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins

 Score = 85.0 bits (211), Expect = 7e-21
 Identities = 39/104 (37%), Positives = 65/104 (62%), Gaps = 13/104 (12%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++  DS + E++RGIT+ S+  S  ++D K       +N+ID+PGH+DF +EV  ++ + 
Sbjct: 36  TTRTDSMELERQRGITIFSAVASFQWEDTK-------VNIIDTPGHMDFIAEVERSLSVL 88

Query: 66  DGTIIVVDCVEGICAQTQV---ALKQAWLEKIQPILVLNKIDRL 106
           DG I+V+  VEG+ AQT++    L++     I  I+ +NKIDR 
Sbjct: 89  DGAILVISAVEGVQAQTRILFRLLRKL---NIPTIIFVNKIDRA 129

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. Length = 237

>gnl|CDD|129575 TIGR00484, EF-G, translation elongation factor EF-G

 Score = 84.9 bits (210), Expect = 7e-20
 Identities = 36/99 (36%), Positives = 64/99 (64%), Gaps = 7/99 (7%)

Query: 7   SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCD 66
           + MD  + E+ERGIT+ S++ ++++K        + IN+ID+PGHVDF+ EV  ++R+ D
Sbjct: 48  ATMDWMEQEKERGITITSAATTVFWKG-------HRINIIDTPGHVDFTVEVERSLRVLD 100

Query: 67  GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           G + V+D V G+  Q++   +QA   ++  I  +NK+D+
Sbjct: 101 GAVAVLDAVGGVQPQSETVWRQANRYEVPRIAFVNKMDK 139

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 [Protein synthesis, Translation factors]. Length = 689

>gnl|CDD|237185 PRK12739, PRK12739, elongation factor G; Reviewed

 Score = 78.7 bits (195), Expect = 1e-17
 Identities = 38/97 (39%), Positives = 62/97 (63%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + EQERGIT+ S++ + ++K ++       IN+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 48  MDWMEQEQERGITITSAATTCFWKGHR-------INIIDTPGHVDFTIEVERSLRVLDGA 100

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           + V D V G+  Q++   +QA    +  I+ +NK+DR
Sbjct: 101 VAVFDAVSGVEPQSETVWRQADKYGVPRIVFVNKMDR 137

Length = 691

>gnl|CDD|104396 PRK10218, PRK10218, GTP-binding protein; Provisional

 Score = 77.8 bits (191), Expect = 2e-17
 Identities = 37/97 (38%), Positives = 60/97 (61%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MDS   E+ERGIT+ + + ++ + D       Y IN++D+PGH DF  EV   + + D  
Sbjct: 43  MDSNDLEKERGITILAKNTAIKWND-------YRINIVDTPGHADFGGEVERVMSMVDSV 95

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           ++VVD  +G   QT+   K+A+   ++PI+V+NK+DR
Sbjct: 96  LLVVDAFDGPMPQTRFVTKKAFAYGLKPIVVINKVDR 132

Length = 607

>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family

 Score = 74.2 bits (183), Expect = 1e-16
 Identities = 30/100 (30%), Positives = 55/100 (55%), Gaps = 7/100 (7%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++  D   +E++R +++++S   L +  +K       INLID+PG+ DF  E  +A+R  
Sbjct: 36  NTVSDYDPEEKKRKMSIETSVAPLEWNGHK-------INLIDTPGYADFVGETLSALRAV 88

Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           D  +IVV+   G+   T+   +     K+  I+ +NK+DR
Sbjct: 89  DAALIVVEAQSGVEVGTEKVWEFLDDAKLPRIIFINKMDR 128

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 contains only bacterial members. Length = 268

>gnl|CDD|234569 PRK00007, PRK00007, elongation factor G; Reviewed

 Score = 74.4 bits (184), Expect = 3e-16
 Identities = 40/98 (40%), Positives = 63/98 (64%), Gaps = 7/98 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + EQERGIT+ S++ + ++KD++       IN+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 50  MDWMEQEQERGITITSAATTCFWKDHR-------INIIDTPGHVDFTIEVERSLRVLDGA 102

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           + V D V G+  Q++   +QA   K+  I  +NK+DR 
Sbjct: 103 VAVFDAVGGVEPQSETVWRQADKYKVPRIAFVNKMDRT 140

Length = 693

>gnl|CDD|206732 cd04169, RF3, Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria

 Score = 67.6 bits (166), Expect = 3e-14
 Identities = 36/106 (33%), Positives = 57/106 (53%), Gaps = 17/106 (16%)

Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE---VSTAVRLCDGTIIV 71
           E++RGI++ SS +   YK         +INL+D+PGH DFS +     TAV   D  ++V
Sbjct: 52  EKQRGISVTSSVMQFEYKG-------CVINLLDTPGHEDFSEDTYRTLTAV---DSAVMV 101

Query: 72  VDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDI 117
           +D  +G+  QT+   +   L  I  I  +NK+DR   +    PL++
Sbjct: 102 IDAAKGVEPQTRKLFEVCRLRGIPIITFINKLDREGRD----PLEL 143

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. Length = 268

>gnl|CDD|226593 COG4108, PrfC, Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

 Score = 63.8 bits (156), Expect = 1e-12
 Identities = 40/117 (34%), Positives = 61/117 (52%), Gaps = 22/117 (18%)

Query: 5   VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE---VSTA 61
            S +M+    E++RGI++ SS +   Y D        L+NL+D+PGH DFS +     TA
Sbjct: 55  KSDWMEI---EKQRGISVTSSVMQFDYAD-------CLVNLLDTPGHEDFSEDTYRTLTA 104

Query: 62  VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPIL-VLNKIDRLILEMKLSPLDI 117
           V   D  ++V+D  +GI  QT    +   L  I PI   +NK+DR   +    PL++
Sbjct: 105 V---DSAVMVIDAAKGIEPQTLKLFEVCRLRDI-PIFTFINKLDREGRD----PLEL 153

Length = 528

>gnl|CDD|179105 PRK00741, prfC, peptide chain release factor 3; Provisional

 Score = 61.7 bits (151), Expect = 8e-12
 Identities = 42/123 (34%), Positives = 66/123 (53%), Gaps = 26/123 (21%)

Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE---VSTAVRLCDGTIIV 71
           E++RGI++ SS +   Y+D        LINL+D+PGH DFS +     TAV   D  ++V
Sbjct: 60  EKQRGISVTSSVMQFPYRD-------CLINLLDTPGHEDFSEDTYRTLTAV---DSALMV 109

Query: 72  VDCVEGICAQTQVALKQAWLEKIQPILV-LNKIDRLILEMKLSPLDIYVHLSQLLEQVNA 130
           +D  +G+  QT+  ++   L    PI   +NK+DR   E    PL+       LL+++  
Sbjct: 110 IDAAKGVEPQTRKLMEVCRLRDT-PIFTFINKLDRDGRE----PLE-------LLDEIEE 157

Query: 131 VMG 133
           V+G
Sbjct: 158 VLG 160

Length = 526

>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

 Score = 57.0 bits (138), Expect = 3e-10
 Identities = 33/99 (33%), Positives = 48/99 (48%), Gaps = 12/99 (12%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           D   +E++RGIT     +  YY+  +D     ++  ID PGH DF S +   +   D  +
Sbjct: 26  DRLPEEKKRGIT---IDLGFYYRKLED----GVMGFIDVPGHPDFISNLLAGLGGIDYAL 78

Query: 70  IVVDCVEGICAQTQ---VALKQAWLEKIQPILVLNKIDR 105
           +VV   EG+ AQT    + L    L     I+VL K DR
Sbjct: 79  LVVAADEGLMAQTGEHLLILDL--LGIKNGIIVLTKADR 115

Length = 447

>gnl|CDD|129594 TIGR00503, prfC, peptide chain release factor 3

 Score = 56.1 bits (135), Expect = 6e-10
 Identities = 31/111 (27%), Positives = 58/111 (52%), Gaps = 11/111 (9%)

Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E++RGI++ +S +   Y+D        L+NL+D+PGH DFS +    +   D  ++V+D 
Sbjct: 61  EKQRGISITTSVMQFPYRDC-------LVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDA 113

Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
            +G+  +T+  ++   L        +NK+DR I +    PL++   +   L
Sbjct: 114 AKGVETRTRKLMEVTRLRDTPIFTFMNKLDRDIRD----PLELLDEVENEL 160

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 [Protein synthesis, Translation factors]. Length = 527

>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 51.8 bits (125), Expect = 7e-09
 Identities = 36/146 (24%), Positives = 60/146 (41%), Gaps = 20/146 (13%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           D   +E++RGIT     I L +    D P+   +  ID PGH  F   +       D  +
Sbjct: 25  DRLPEEKKRGIT-----IDLGFA-YLDLPDGKRLGFIDVPGHEKFVKNMLAGAGGIDAVL 78

Query: 70  IVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQV 128
           +VV   EGI  QT+  L+   L  I + ++VL K D +  +           L  + E++
Sbjct: 79  LVVAADEGIMPQTREHLEILELLGIKKGLVVLTKADLVDEDR----------LELVEEEI 128

Query: 129 NAVMGELFASQVMDETAVKTTAQDNE 154
             ++   F   + D      ++   E
Sbjct: 129 LELLAGTF---LADAPIFPVSSVTGE 151

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea. Length = 170

>gnl|CDD|129567 TIGR00475, selB, selenocysteine-specific elongation factor SelB

 Score = 51.4 bits (123), Expect = 3e-08
 Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 8/97 (8%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           D   +E++RG+T+                 +Y +  ID PGH  F S         D  +
Sbjct: 26  DRLPEEKKRGMTIDLGFAYF-------PLPDYRLGFIDVPGHEKFISNAIAGGGGIDAAL 78

Query: 70  IVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR 105
           +VVD  EG+  QT   L    L  I   I+V+ K DR
Sbjct: 79  LVVDADEGVMTQTGEHLAVLDLLGIPHTIVVITKADR 115

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 [Protein synthesis, Translation factors]. Length = 581

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

 Score = 49.8 bits (120), Expect = 3e-08
 Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 9/91 (9%)

Query: 18  RGIT--MKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV 75
            GIT  + +  + +  K          I  ID+PGH  F++  +    + D  I+VV   
Sbjct: 31  GGITQHIGAYQVPIDVKIPG-------ITFIDTPGHEAFTNMRARGASVTDIAILVVAAD 83

Query: 76  EGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           +G+  QT  A+  A    +  I+ +NKID+ 
Sbjct: 84  DGVMPQTIEAINHAKAANVPIIVAINKIDKP 114

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|237055 PRK12317, PRK12317, elongation factor 1-alpha; Reviewed

 Score = 50.7 bits (122), Expect = 4e-08
 Identities = 33/102 (32%), Positives = 52/102 (50%), Gaps = 16/102 (15%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  K+E+ERG+T     I L +K  K   ++Y   ++D PGH DF   + T     D  
Sbjct: 59  MDRLKEERERGVT-----IDLAHK--KFETDKYYFTIVDCPGHRDFVKNMITGASQADAA 111

Query: 69  IIVV--DCVEGICAQTQVALKQAWLEKI----QPILVLNKID 104
           ++VV  D   G+  QT+   +  +L +     Q I+ +NK+D
Sbjct: 112 VLVVAADDAGGVMPQTR---EHVFLARTLGINQLIVAINKMD 150

Length = 425

>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 50.0 bits (120), Expect = 8e-08
 Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 7/72 (9%)

Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +  +D  K+E+ERG+T+  +          +T + Y   +ID+PGH DF   + T     
Sbjct: 57  AWVLDKTKEERERGVTIDVAHSKF------ETDK-YNFTIIDAPGHRDFVKNMITGASQA 109

Query: 66  DGTIIVVDCVEG 77
           D  ++VVD  +G
Sbjct: 110 DVAVLVVDARDG 121

Length = 428

>gnl|CDD|206676 cd01889, SelB_euk, SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 32/102 (31%), Positives = 43/102 (42%), Gaps = 7/102 (6%)

Query: 10  DSRKDEQERGITM-------KSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAV 62
           D     QERGIT+       +         +     E Y I L+D PGH      +    
Sbjct: 30  DKNPQSQERGITLDLGFSSFEVDKPKHLEDNENPQIENYQITLVDCPGHASLIRTIIGGA 89

Query: 63  RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
           ++ D  ++VVD  +GI  QT   L    L     I+VLNKID
Sbjct: 90  QIIDLMLLVVDAKKGIQTQTAECLVIGELLCKPLIVVLNKID 131

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 eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea. Length = 192

>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha

 Score = 48.3 bits (115), Expect = 3e-07
 Identities = 29/102 (28%), Positives = 50/102 (49%), Gaps = 11/102 (10%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  K+E+ERG+T     I + +   K   ++Y + ++D PGH DF   + T     D  
Sbjct: 60  MDRLKEERERGVT-----IDVAHW--KFETDKYEVTIVDCPGHRDFIKNMITGASQADAA 112

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKI----QPILVLNKIDRL 106
           ++VV   +G         + A+L +     Q I+ +NK+D +
Sbjct: 113 VLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSV 154

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 [Protein synthesis, Translation factors]. Length = 426

>gnl|CDD|206729 cd04166, CysN_ATPS, CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex

 Score = 46.4 bits (111), Expect = 8e-07
 Identities = 27/97 (27%), Positives = 50/97 (51%), Gaps = 8/97 (8%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  + E+E+GIT+  +    Y+   K    +++I   D+PGH  ++  + T     D  
Sbjct: 53  VDGLQAEREQGITIDVAYR--YFSTPK---RKFII--ADTPGHEQYTRNMVTGASTADLA 105

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKID 104
           I++VD  +G+  QT+     A L  I   ++ +NK+D
Sbjct: 106 ILLVDARKGVLEQTRRHSYIASLLGIRHVVVAVNKMD 142

CysN_ATPS subfamily. 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. Length = 209

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 44.8 bits (106), Expect = 5e-06
 Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 13/92 (14%)

Query: 19  GITMKSSSISLY-----YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD 73
           GIT K   I  Y     YKD         I  +D+PGH  FSS  S    + D  I+++ 
Sbjct: 276 GITQK---IGAYEVEFEYKDENQK-----IVFLDTPGHEAFSSMRSRGANVTDIAILIIA 327

Query: 74  CVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
             +G+  QT  A+       +  I+ +NKID+
Sbjct: 328 ADDGVKPQTIEAINYIQAANVPIIVAINKIDK 359

Length = 742

>gnl|CDD|206670 cd01883, EF1_alpha, Elongation Factor 1-alpha (EF1-alpha) protein family

 Score = 44.0 bits (105), Expect = 7e-06
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 7/70 (10%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  K+E+ERG+T+    + L   +     E+Y   +ID+PGH DF   + T     D 
Sbjct: 51  VLDKLKEERERGVTI---DVGLAKFET----EKYRFTIIDAPGHRDFVKNMITGASQADV 103

Query: 68  TIIVVDCVEG 77
            ++VV   +G
Sbjct: 104 AVLVVSARKG 113

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 yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression. Length = 219

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

 Score = 44.0 bits (104), Expect = 9e-06
 Identities = 24/61 (39%), Positives = 33/61 (54%)

Query: 46  IDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           ID+PGH  F++       L D  I++VD  EG   QTQ AL    + K   ++  NKIDR
Sbjct: 74  IDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDR 133

Query: 106 L 106
           +
Sbjct: 134 I 134

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|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 44.1 bits (105), Expect = 1e-05
 Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 2/61 (3%)

Query: 46  IDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILV-LNKID 104
           ID+PGH  F++  +    + D  I+VV   +G+  QT  A+  A    + PI+V +NKID
Sbjct: 60  IDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGV-PIVVAINKID 118

Query: 105 R 105
           +
Sbjct: 119 K 119

Length = 509

>gnl|CDD|185474 PTZ00141, PTZ00141, elongation factor 1- alpha; Provisional

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 25/70 (35%), Positives = 36/70 (51%), Gaps = 9/70 (12%)

Query: 9   MDSRKDEQERGITMKSSSISLY-YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
           +D  K E+ERGIT+    I+L+ ++  K     Y   +ID+PGH DF   + T     D 
Sbjct: 60  LDKLKAERERGITI---DIALWKFETPK-----YYFTIIDAPGHRDFIKNMITGTSQADV 111

Query: 68  TIIVVDCVEG 77
            I+VV    G
Sbjct: 112 AILVVASTAG 121

Length = 446

>gnl|CDD|129576 TIGR00485, EF-Tu, translation elongation factor TU

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 28/99 (28%), Positives = 49/99 (49%), Gaps = 12/99 (12%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ ++ +  Y  +N+          +D PGH D+   + T     DG 
Sbjct: 50  IDNAPEEKARGITINTAHVE-YETENRHYAH------VDCPGHADYVKNMITGAAQMDGA 102

Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ LNK D
Sbjct: 103 ILVVSATDGPMPQTREHILLARQVGVPYI--VVFLNKCD 139

This model 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 [Protein synthesis, Translation factors]. Length = 394

>gnl|CDD|206675 cd01888, eIF2_gamma, Gamma subunit of initiation factor 2 (eIF2 gamma)

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 29/122 (23%), Positives = 51/122 (41%), Gaps = 28/122 (22%)

Query: 8   YMDSRKDEQERGITMK--SSSISLYYKDNKDTPEEYL------------------INLID 47
           +    K+E +R IT+K   ++  +Y   N   P  Y                   ++ +D
Sbjct: 24  WTVRHKEELKRNITIKLGYANAKIYKCPNCGCPRPYDTPECECPGCGGETKLVRHVSFVD 83

Query: 48  SPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNK 102
            PGH    + + +   + DG ++++   E  C Q Q      AL+   L+ I  I++ NK
Sbjct: 84  CPGHEILMATMLSGAAVMDGALLLIAANEP-CPQPQTSEHLAALEIMGLKHI--IILQNK 140

Query: 103 ID 104
           ID
Sbjct: 141 ID 142

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 selenocysteine-specific elongation factor from eubacteria. The translational factor components of the ternary complex, IF2 in eubacteria and eIF2 in eukaryotes are not the same protein (despite their unfortunately similar names). Both factors are GTPases; however, eubacterial IF-2 is a single polypeptide, while eIF2 is heterotrimeric. eIF2-gamma is a member of the same family as eubacterial IF2, but the two proteins are only distantly related. This family includes translation initiation, elongation, and release factors. Length = 197

>gnl|CDD|232995 TIGR00487, IF-2, translation initiation factor IF-2

 Score = 42.4 bits (100), Expect = 4e-05
 Identities = 25/87 (28%), Positives = 44/87 (50%), Gaps = 6/87 (6%)

Query: 19  GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI 78
           GIT    +  +  +D K      +I  +D+PGH  F+S  +   ++ D  ++VV   +G+
Sbjct: 119 GITQHIGAYHVENEDGK------MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGV 172

Query: 79  CAQTQVALKQAWLEKIQPILVLNKIDR 105
             QT  A+  A    +  I+ +NKID+
Sbjct: 173 MPQTIEAISHAKAANVPIIVAINKIDK 199

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 [Protein synthesis, Translation factors]. Length = 587

>gnl|CDD|211860 TIGR03680, eif2g_arch, translation initiation factor 2 subunit gamma

 Score = 42.3 bits (100), Expect = 4e-05
 Identities = 30/119 (25%), Positives = 54/119 (45%), Gaps = 27/119 (22%)

Query: 10  DSRKDEQERGITMK--SSSISLYYKDNKDTPEEYL-----------------INLIDSPG 50
           D+  +E +RGI+++   +   +Y     D PE Y                  ++ +D+PG
Sbjct: 30  DTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPG 89

Query: 51  HVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNKID 104
           H    + + +   L DG ++V+   E  C Q Q     +AL+   ++ I  ++V NKID
Sbjct: 90  HETLMATMLSGAALMDGALLVIAANEP-CPQPQTREHLMALEIIGIKNI--VIVQNKID 145

This model represents the archaeal translation initiation factor 2 subunit gamma and is found in all known archaea. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA. Length = 406

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

 Score = 41.2 bits (97), Expect = 5e-05
 Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 8/81 (9%)

Query: 38  PEEYLINLIDSPGHVDFSS-------EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW 90
            + Y  NL+D+ G  D+ +        V +++R+ D  I+V+D  E +  QT+  +  A 
Sbjct: 48  GKTYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHA- 106

Query: 91  LEKIQPILVLNKIDRLILEMK 111
              +  ILV NKID    ++K
Sbjct: 107 ESGVPIILVGNKIDLRDAKLK 127

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|177010 CHL00071, tufA, elongation factor Tu

 Score = 41.9 bits (99), Expect = 5e-05
 Identities = 30/105 (28%), Positives = 48/105 (45%), Gaps = 22/105 (20%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINL-----IDSPGHVDFSSEVSTAVRL 64
           DS  +E+ RGIT+ ++ +            EY         +D PGH D+   + T    
Sbjct: 51  DSAPEEKARGITINTAHV------------EYETENRHYAHVDCPGHADYVKNMITGAAQ 98

Query: 65  CDGTIIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKIDRL 106
            DG I+VV   +G   QT+  +   KQ  +  I  ++ LNK D++
Sbjct: 99  MDGAILVVSAADGPMPQTKEHILLAKQVGVPNI--VVFLNKEDQV 141

Length = 409

>gnl|CDD|213679 TIGR02034, CysN, sulfate adenylyltransferase, large subunit

 Score = 41.6 bits (98), Expect = 6e-05
 Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 8/97 (8%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  + E+E+GIT     I + Y+    T +   I + D+PGH  ++  ++T     D  
Sbjct: 55  VDGLQAEREQGIT-----IDVAYR-YFSTDKRKFI-VADTPGHEQYTRNMATGASTADLA 107

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKID 104
           +++VD  +G+  QT+     A L  I   +L +NK+D
Sbjct: 108 VLLVDARKGVLEQTRRHSYIASLLGIRHVVLAVNKMD 144

Metabolic assimilation of sulfur from inorganic sulfate, requires sulfate activation by coupling to a nucleoside, for the production of high-energy nucleoside phosphosulfates. This pathway appears to be similar in all prokaryotic organisms. Activation is first achieved through sulfation of sulfate with ATP by sulfate adenylyltransferase (ATP sulfurylase) to produce 5'-phosphosulfate (APS), coupled by GTP hydrolysis. Subsequently, APS is phosphorylated by an APS kinase to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. 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) [Central intermediary metabolism, Sulfur metabolism]. Length = 406

>gnl|CDD|223128 COG0050, TufB, GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

 Score = 40.4 bits (95), Expect = 1e-04
 Identities = 27/98 (27%), Positives = 49/98 (50%), Gaps = 12/98 (12%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           D+  +E+ RGIT+ ++ +        +T   +  + +D PGH D+   + T     DG I
Sbjct: 51  DNAPEEKARGITINTAHVEY------ETANRHYAH-VDCPGHADYVKNMITGAAQMDGAI 103

Query: 70  IVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           +VV   +G   QT+  +   +Q  +  I  ++ LNK+D
Sbjct: 104 LVVAATDGPMPQTREHILLARQVGVPYI--VVFLNKVD 139

Length = 394

>gnl|CDD|165621 PLN00043, PLN00043, elongation factor 1-alpha; Provisional

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 7/69 (10%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  K E+ERGIT+    I+L+    K    +Y   +ID+PGH DF   + T     D  
Sbjct: 60  LDKLKAERERGITI---DIALW----KFETTKYYCTVIDAPGHRDFIKNMITGTSQADCA 112

Query: 69  IIVVDCVEG 77
           ++++D   G
Sbjct: 113 VLIIDSTTG 121

Length = 447

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

 Score = 39.4 bits (92), Expect = 2e-04
 Identities = 24/97 (24%), Positives = 36/97 (37%), Gaps = 12/97 (12%)

Query: 17  ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-----SEVSTAVRLCDGTIIV 71
             G T             K       + L+D+PG  +F            +R  D  ++V
Sbjct: 28  VPGTTRDPDVYVKELDKGK-----VKLVLVDTPGLDEFGGLGREELARLLLRGADLILLV 82

Query: 72  VDCVEGICAQTQ--VALKQAWLEKIQPILVLNKIDRL 106
           VD  +    +    + L++   E I  ILV NKID L
Sbjct: 83  VDSTDRESEEDAKLLILRRLRKEGIPIILVGNKIDLL 119

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|237184 PRK12736, PRK12736, elongation factor Tu; Reviewed

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 28/98 (28%), Positives = 50/98 (51%), Gaps = 12/98 (12%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           D+  +E+ERGIT+ ++ +  Y  + +          +D PGH D+   + T     DG I
Sbjct: 51  DAAPEEKERGITINTAHVE-YETEKRHYAH------VDCPGHADYVKNMITGAAQMDGAI 103

Query: 70  IVVDCVEGICAQTQ--VAL-KQAWLEKIQPILVLNKID 104
           +VV   +G   QT+  + L +Q  +  +  ++ LNK+D
Sbjct: 104 LVVAATDGPMPQTREHILLARQVGVPYL--VVFLNKVD 139

Length = 394

>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 28/91 (30%), Positives = 49/91 (53%), Gaps = 8/91 (8%)

Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E+E+GIT     I + Y+    T +   I + D+PGH  ++  ++T     D  I++VD 
Sbjct: 67  EREQGIT-----IDVAYR-YFSTEKRKFI-IADTPGHEQYTRNMATGASTADLAILLVDA 119

Query: 75  VEGICAQTQVALKQAWLEKIQPILV-LNKID 104
            +G+  QT+     A L  I+ ++V +NK+D
Sbjct: 120 RKGVLEQTRRHSFIASLLGIRHVVVAVNKMD 150

Length = 431

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

 Score = 39.8 bits (94), Expect = 3e-04
 Identities = 23/61 (37%), Positives = 31/61 (50%)

Query: 46  IDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           ID+PGH  F++       L D  I+VVD  EG   QT  A+      K   ++  NKIDR
Sbjct: 76  IDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDR 135

Query: 106 L 106
           +
Sbjct: 136 I 136

Length = 586

>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional

 Score = 39.6 bits (92), Expect = 4e-04
 Identities = 36/133 (27%), Positives = 62/133 (46%), Gaps = 25/133 (18%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ ++++  Y  +N+          +D PGH D+   + T     DG 
Sbjct: 119 IDAAPEERARGITINTATVE-YETENRHYAH------VDCPGHADYVKNMITGAAQMDGA 171

Query: 69  IIVVDCVEGICAQTQ---VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL 125
           I+VV   +G   QT+   +  KQ  +  +  ++ LNK D+             V   +LL
Sbjct: 172 ILVVSGADGPMPQTKEHILLAKQVGVPNM--VVFLNKQDQ-------------VDDEELL 216

Query: 126 EQVNAVMGELFAS 138
           E V   + EL +S
Sbjct: 217 ELVELEVRELLSS 229

Length = 478

>gnl|CDD|235194 PRK04000, PRK04000, translation initiation factor IF-2 subunit gamma; Validated

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 37/124 (29%)

Query: 10  DSRKDEQERGITMK--SSSISLYYKDNKDTPEEYL-----------------INLIDSPG 50
           D   +E +RGIT++   +  ++    + + PE Y                  ++ +D+PG
Sbjct: 35  DRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPG 94

Query: 51  HVDFSSEVSTAVRLC-----DGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVL 100
           H     E   A  L      DG I+V+   E  C Q Q     +AL    ++ I  ++V 
Sbjct: 95  H-----ETLMATMLSGAALMDGAILVIAANEP-CPQPQTKEHLMALDIIGIKNI--VIVQ 146

Query: 101 NKID 104
           NKID
Sbjct: 147 NKID 150

Length = 411

>gnl|CDD|178673 PLN03127, PLN03127, Elongation factor Tu; Provisional

 Score = 38.7 bits (90), Expect = 5e-04
 Identities = 30/117 (25%), Positives = 55/117 (47%), Gaps = 19/117 (16%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +  Y    +          +D PGH D+   + T     DG 
Sbjct: 99  IDKAPEEKARGITIATAHVE-YETAKRHYAH------VDCPGHADYVKNMITGAAQMDGG 151

Query: 69  IIVVDCVEGICAQTQ---VALKQAWLEKIQPILVLNKIDRL-------ILEMKLSPL 115
           I+VV   +G   QT+   +  +Q  +  +  ++ LNK+D +       ++EM+L  L
Sbjct: 152 ILVVSAPDGPMPQTKEHILLARQVGVPSL--VVFLNKVDVVDDEELLELVEMELREL 206

Length = 447

>gnl|CDD|206671 cd01884, EF_Tu, Elongation Factor Tu (EF-Tu) GTP-binding proteins

 Score = 37.9 bits (89), Expect = 7e-04
 Identities = 29/103 (28%), Positives = 45/103 (43%), Gaps = 22/103 (21%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINL-----IDSPGHVDFSSEVSTAVRL 64
           D   +E+ RGIT+ ++ +            EY         +D PGH D+   + T    
Sbjct: 41  DKAPEEKARGITINTAHV------------EYETANRHYAHVDCPGHADYIKNMITGAAQ 88

Query: 65  CDGTIIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
            DG I+VV   +G   QT+  L   +Q  +  I  ++ LNK D
Sbjct: 89  MDGAILVVSATDGPMPQTREHLLLARQVGVPYI--VVFLNKAD 129

EF-Tu subfamily. 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. Length = 195

>gnl|CDD|227582 COG5257, GCD11, Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 34/120 (28%), Positives = 54/120 (45%), Gaps = 29/120 (24%)

Query: 10  DSRKDEQERGITMK--SSSISLYYKDNKDTPEEYL-----------------INLIDSPG 50
           D   +E +RGIT+K   +   +Y       PE Y                  ++ +D+PG
Sbjct: 36  DRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAPG 95

Query: 51  H-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNKID 104
           H    ++ +S A  L DG ++V+   E  C Q Q     +AL+   ++ I  I+V NKID
Sbjct: 96  HETLMATMLSGAA-LMDGALLVIAANEP-CPQPQTREHLMALEIIGIKNI--IIVQNKID 151

Length = 415

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	161
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.91
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.85
KOG0467|consensus	887		99.85
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.84
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.82
PTZ00416	836	elongation factor 2; Provisional	99.82
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.81
PRK07560	731	elongation factor EF-2; Reviewed	99.8
KOG0462|consensus	650		99.8
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.79
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.79
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.78
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.78
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.77
PRK12739	691	elongation factor G; Reviewed	99.77
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.77
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.76
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.76
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.76
PRK00007	693	elongation factor G; Reviewed	99.76
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.76
KOG0084|consensus	205		99.76
KOG0469|consensus	842		99.76
PLN00043	447	elongation factor 1-alpha; Provisional	99.76
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.75
PRK05433	600	GTP-binding protein LepA; Provisional	99.75
PTZ00141	446	elongation factor 1- alpha; Provisional	99.75
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.75
KOG0468|consensus	971		99.75
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.75
PRK12736	394	elongation factor Tu; Reviewed	99.74
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.74
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.74
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.74
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.73
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.73
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.73
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.73
CHL00071	409	tufA elongation factor Tu	99.73
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.73
PLN03127	447	Elongation factor Tu; Provisional	99.73
PLN03126	478	Elongation factor Tu; Provisional	99.72
KOG0465|consensus	721		99.72
PRK12317	425	elongation factor 1-alpha; Reviewed	99.72
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.71
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.71
PRK10218	607	GTP-binding protein; Provisional	99.71
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.7
PRK12735	396	elongation factor Tu; Reviewed	99.7
PRK00049	396	elongation factor Tu; Reviewed	99.7
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.69
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.69
PRK05306	787	infB translation initiation factor IF-2; Validated	99.69
COG1159	298	Era GTPase [General function prediction only]	99.69
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.68
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.68
CHL00189	742	infB translation initiation factor 2; Provisional	99.68
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.67
KOG0464|consensus	753		99.66
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.66
PRK13351	687	elongation factor G; Reviewed	99.66
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.66
cd00881	189	GTP_translation_factor GTP translation factor fami	99.65
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.64
PRK12740	668	elongation factor G; Reviewed	99.63
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.63
KOG0092|consensus	200		99.62
KOG0094|consensus	221		99.61
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.61
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.6
COG1160	444	Predicted GTPases [General function prediction onl	99.6
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.59
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.59
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.59
KOG0458|consensus	603		99.59
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.58
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.57
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.56
KOG1145|consensus	683		99.56
PRK15494	339	era GTPase Era; Provisional	99.56
PRK03003	472	GTP-binding protein Der; Reviewed	99.55
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.55
KOG0078|consensus	207		99.55
KOG0093|consensus	193		99.53
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.53
KOG0087|consensus	222		99.52
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.52
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.52
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.51
KOG0080|consensus	209		99.51
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.51
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.51
KOG0079|consensus	198		99.51
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.5
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.5
PRK00093	435	GTP-binding protein Der; Reviewed	99.5
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.5
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.5
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.5
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.5
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.5
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.49
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.49
COG2229	187	Predicted GTPase [General function prediction only	99.49
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.49
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.49
KOG0460|consensus	449		99.49
PRK00093	435	GTP-binding protein Der; Reviewed	99.49
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.49
PRK00089	292	era GTPase Era; Reviewed	99.48
PRK03003	472	GTP-binding protein Der; Reviewed	99.48
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.48
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.48
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.48
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.48
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.48
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.48
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.48
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.48
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.47
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.47
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.46
KOG0098|consensus	216		99.46
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.46
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.46
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.46
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.46
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.46
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.46
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.46
PTZ00369	189	Ras-like protein; Provisional	99.46
COG1160	444	Predicted GTPases [General function prediction onl	99.45
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.45
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.45
PRK04004	586	translation initiation factor IF-2; Validated	99.45
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.45
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.45
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.45
PTZ00099	176	rab6; Provisional	99.45
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.45
PLN03118	211	Rab family protein; Provisional	99.45
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.45
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.45
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.45
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.45
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.45
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.45
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.45
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.44
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.44
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.43
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.43
KOG0095|consensus	213		99.43
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.43
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.43
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.43
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.42
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.42
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.42
PLN03110	216	Rab GTPase; Provisional	99.42
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.42
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.42
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.42
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.42
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.42
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.41
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.41
PRK14845	1049	translation initiation factor IF-2; Provisional	99.41
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.41
PLN00223	181	ADP-ribosylation factor; Provisional	99.4
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.4
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.4
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.4
KOG0086|consensus	214		99.4
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.4
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.4
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.4
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.4
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.39
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.39
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.39
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.39
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.38
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.38
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.37
KOG0394|consensus	210		99.36
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.36
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.36
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.35
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.35
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.35
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.35
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.35
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.35
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.35
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.34
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.34
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.34
PTZ00133	182	ADP-ribosylation factor; Provisional	99.34
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.34
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.33
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.33
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.33
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.33
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.33
PRK04213	201	GTP-binding protein; Provisional	99.33
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.32
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.32
PLN00023	334	GTP-binding protein; Provisional	99.32
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.31
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.31
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.3
KOG0097|consensus	215		99.29
PRK12298	390	obgE GTPase CgtA; Reviewed	99.29
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.29
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.29
PLN03108	210	Rab family protein; Provisional	99.29
KOG0088|consensus	218		99.28
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.28
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.28
PRK11058	426	GTPase HflX; Provisional	99.26
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.26
PRK12299	335	obgE GTPase CgtA; Reviewed	99.26
KOG0083|consensus	192		99.25
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.25
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.25
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.24
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.24
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.24
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.24
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.24
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.23
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.22
KOG0070|consensus	181		99.22
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.22
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.21
KOG0075|consensus	186		99.2
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.2
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.19
COG1100	219	GTPase SAR1 and related small G proteins [General	99.19
KOG0073|consensus	185		99.18
KOG0081|consensus	219		99.18
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.17
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.17
COG0486	454	ThdF Predicted GTPase [General function prediction	99.17
COG0218	200	Predicted GTPase [General function prediction only	99.14
COG5258	527	GTPBP1 GTPase [General function prediction only]	99.14
KOG0074|consensus	185		99.13
PRK09866	741	hypothetical protein; Provisional	99.13
PRK12297	424	obgE GTPase CgtA; Reviewed	99.12
KOG0395|consensus	196		99.12
KOG0461|consensus	522		99.12
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.11
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.11
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.09
KOG0459|consensus	501		99.08
PRK12296	500	obgE GTPase CgtA; Reviewed	99.07
KOG0091|consensus	213		99.06
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.06
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.05
KOG1144|consensus	1064		99.03
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.0
KOG0393|consensus	198		98.97
KOG0076|consensus	197		98.96
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.95
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.92
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.92
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.9
KOG0071|consensus	180		98.89
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.84
KOG1423|consensus	379		98.84
COG1084	346	Predicted GTPase [General function prediction only	98.82
KOG0090|consensus	238		98.81
KOG1143|consensus	591		98.76
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.76
KOG4252|consensus	246		98.73
KOG1191|consensus	531		98.69
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.69
KOG0077|consensus	193		98.65
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.64
KOG0466|consensus	466		98.59
KOG0096|consensus	216		98.59
COG2262	411	HflX GTPases [General function prediction only]	98.58
KOG0463|consensus	641		98.53
PRK13768	253	GTPase; Provisional	98.51
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.47
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.44
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.42
KOG1489|consensus	366		98.39
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.38
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.36
KOG0072|consensus	182		98.34
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.28
KOG1673|consensus	205		98.28
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.19
KOG0052|consensus	391		98.17
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.1
KOG2486|consensus	320		98.09
KOG1532|consensus	366		98.08
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.07
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.06
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.02
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.98
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.93
COG1163	365	DRG Predicted GTPase [General function prediction	97.86
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.85
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.84
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.84
KOG4423|consensus	229		97.81
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.79
cd03110	179	Fer4_NifH_child This protein family's function is	97.73
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.7
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.67
KOG3883|consensus	198		97.66
KOG1707|consensus	625		97.66
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	97.63
COG3596	296	Predicted GTPase [General function prediction only	97.62
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.61
COG0536	369	Obg Predicted GTPase [General function prediction	97.59
PRK12289	352	GTPase RsgA; Reviewed	97.58
KOG0082|consensus	354		97.48
PTZ00258	390	GTP-binding protein; Provisional	97.46
KOG1954|consensus	532		97.46
PRK09601	364	GTP-binding protein YchF; Reviewed	97.34
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	97.31
KOG3886|consensus	295		97.28
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	97.28
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.26
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.25
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.25
PRK00098	298	GTPase RsgA; Reviewed	97.23
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	97.19
PRK09602	396	translation-associated GTPase; Reviewed	97.18
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.15
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.06
KOG1490|consensus	620		97.02
KOG0099|consensus	379		96.99
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.8
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	96.77
cd02036	179	MinD Bacterial cell division requires the formatio	96.66
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.65
COG5019	373	CDC3 Septin family protein [Cell division and chro	96.62
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.58
KOG2484|consensus	435		96.51
PRK01889	356	GTPase RsgA; Reviewed	96.48
PRK12288	347	GTPase RsgA; Reviewed	96.48
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	96.45
cd03114	148	ArgK-like The function of this protein family is u	96.39
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	96.3
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	96.19
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.19
KOG2655|consensus	366		96.13
cd03112	158	CobW_like The function of this protein family is u	96.04
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	96.01
cd03111	106	CpaE_like This protein family consists of proteins	95.97
KOG2485|consensus	335		95.97
PHA02518	211	ParA-like protein; Provisional	95.93
KOG0447|consensus	980		95.87
COG1149	284	MinD superfamily P-loop ATPase containing an inser	95.85
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.76
COG1161	322	Predicted GTPases [General function prediction onl	95.69
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.64
KOG0448|consensus	749		95.63
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.54
PRK13796	365	GTPase YqeH; Provisional	95.36
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	95.23
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	95.06
CHL00175	281	minD septum-site determining protein; Validated	95.05
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	94.99
KOG2423|consensus	572		94.76
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	94.7
PRK13849	231	putative crown gall tumor protein VirC1; Provision	94.68
KOG1547|consensus	336		94.54
PRK10416	318	signal recognition particle-docking protein FtsY;	94.54
KOG1424|consensus	562		94.46
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	94.17
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.14
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	94.11
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	93.9
TIGR00959	428	ffh signal recognition particle protein. This mode	93.87
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	93.72
PRK14974	336	cell division protein FtsY; Provisional	93.56
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	93.41
cd02032	267	Bchl_like This family of proteins contains bchL an	93.34
KOG0410|consensus	410		93.32
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	93.3
PRK10867	433	signal recognition particle protein; Provisional	93.2
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	93.12
PRK09563	287	rbgA GTPase YlqF; Reviewed	92.85
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	92.81
PRK11670	369	antiporter inner membrane protein; Provisional	92.69
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	92.68
PRK10818	270	cell division inhibitor MinD; Provisional	92.63
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	92.5
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	92.5
KOG1707|consensus	625		92.35
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	92.12
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	92.04
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	92.03
COG1162	301	Predicted GTPases [General function prediction onl	91.86
PRK11519	719	tyrosine kinase; Provisional	91.73
PRK13796	365	GTPase YqeH; Provisional	91.2
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	91.17
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	91.02
KOG3887|consensus	347		90.96
COG1161	322	Predicted GTPases [General function prediction onl	90.78
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	90.45
KOG0780|consensus	483		90.09
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	89.57
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	89.38
PRK10037	250	cell division protein; Provisional	89.3
KOG1534|consensus	273		89.15
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	89.13
TIGR00101	199	ureG urease accessory protein UreG. This model rep	88.91
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	88.8
CHL00072	290	chlL photochlorophyllide reductase subunit L	88.63
cd02117	212	NifH_like This family contains the NifH (iron prot	88.34
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	87.11
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	87.11
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	86.18
PRK12288	347	GTPase RsgA; Reviewed	85.6
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	85.29
PF10609	81	ParA: ParA/MinD ATPase like; InterPro: IPR019591 T	85.1
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	84.96
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	84.63
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	84.32
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	84.16
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	84.04
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	83.98
PRK13869	405	plasmid-partitioning protein RepA; Provisional	83.9
COG0523	323	Putative GTPases (G3E family) [General function pr	83.86
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	83.66
KOG1533|consensus	290		83.6
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	82.82
PRK13705	388	plasmid-partitioning protein SopA; Provisional	82.72
KOG3022|consensus	300		82.62
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	82.31
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	82.13
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	82.04
cd02040	270	NifH NifH gene encodes component II (iron protein)	80.86
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	80.52
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	80.36
PRK12289	352	GTPase RsgA; Reviewed	80.32

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.91  E-value=2.9e-23  Score=160.80  Aligned_cols=135  Identities=62%  Similarity=1.006  Sum_probs=118.8

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecC---CCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDN---KDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~---~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +|++|++|..++|++||+|++....++.|...   ...+++++++|||||||++|...+..+++.+|++++|+|+.+|+.
T Consensus        32 ~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~  111 (222)
T cd01885          32 AGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVC  111 (222)
T ss_pred             CCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCC
Confidence            47788999999999999999998888888621   012447899999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhch
Q psy2609          80 AQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFA  137 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  137 (161)
                      .+++.+++.+...++|+++|+||+|+...+..+.+.+.+.++..+.++++..+.....
T Consensus       112 ~~t~~~l~~~~~~~~p~ilviNKiD~~~~e~~~~~~~~~~~~~~ii~~~n~~i~~~~~  169 (222)
T cd01885         112 VQTETVLRQALKERVKPVLVINKIDRLILELKLSPEEAYQRLARIIEQVNAIIGTYAD  169 (222)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEECCCcchhhhcCCHHHHHHHHHHHHHHHhHHHHhccc
Confidence            9999999888888999999999999987777788899999999999999988776543

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

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.85  E-value=1.4e-21  Score=171.31  Aligned_cols=128  Identities=40%  Similarity=0.540  Sum_probs=110.6

Q ss_pred             ccccc----ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           3 CMVSS----YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         3 ~g~~~----~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      +|+.+    ++|+++.|++||+|+.....++.|.     + +++|+|||||||-+|...+..+++.+|++++|+|+..|+
T Consensus        40 ~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~-----~-~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV  113 (697)
T COG0480          40 IGEVHDGAATMDWMEQEQERGITITSAATTLFWK-----G-DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGV  113 (697)
T ss_pred             CccccCCCccCCCcHHHHhcCCEEeeeeeEEEEc-----C-ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCe
Confidence            45555    9999999999999999999999999     2 499999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHH--HHHHhhhhhhc
Q psy2609          79 CAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL--EQVNAVMGELF  136 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~  136 (161)
                      .+|++..|+++...++|.++++||||+...++.....+...++....  -++|+..+..|
T Consensus       114 ~~QTEtv~rqa~~~~vp~i~fiNKmDR~~a~~~~~~~~l~~~l~~~~~~v~~pIg~~~~f  173 (697)
T COG0480         114 EPQTETVWRQADKYGVPRILFVNKMDRLGADFYLVVEQLKERLGANPVPVQLPIGAEEEF  173 (697)
T ss_pred             eecHHHHHHHHhhcCCCeEEEEECccccccChhhhHHHHHHHhCCCceeeeccccCcccc
Confidence            99999999999999999999999999998887766777777766533  33444443333

>KOG0467|consensus

Probab=99.85  E-value=4.4e-21  Score=165.92  Aligned_cols=130  Identities=62%  Similarity=0.999  Sum_probs=123.3

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQ   81 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~   81 (161)
                      +|||.||+|..++|+.||||++.+.++....       ++.+++||+|||-+|.+++.++.+-+|++++++|+.+|+..|
T Consensus        40 lagkirfld~redeq~rgitmkss~is~~~~-------~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~q  112 (887)
T KOG0467|consen   40 LAGKIRFLDTREDEQTRGITMKSSAISLLHK-------DYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQ  112 (887)
T ss_pred             hccceeeccccchhhhhceeeeccccccccC-------ceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchh
Confidence            6999999999999999999999999987666       899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchh
Q psy2609          82 TQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFAS  138 (161)
Q Consensus        82 ~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  138 (161)
                      +...++++...+..+++|+||+|+..-+..+.+.++|..+.+++++++..++..++.
T Consensus       113 t~~vlrq~~~~~~~~~lvinkidrl~~el~lsp~ea~~~l~r~i~~vn~~i~~~~~~  169 (887)
T KOG0467|consen  113 TYAVLRQAWIEGLKPILVINKIDRLITELKLSPQEAYEHLLRVIEQVNGVIGQFLGG  169 (887)
T ss_pred             HHHHHHHHHHccCceEEEEehhhhHHHHHhcChHHHHHHHHHHHHHhhhHHHHhhcc
Confidence            999999999999999999999999888888899999999999999999999987764

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.84  E-value=5e-21  Score=152.22  Aligned_cols=125  Identities=32%  Similarity=0.471  Sum_probs=101.9

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +++++|..++|++||+|++....++.|.       +++++||||||+.+|...+..+++.+|++++|+|+..++..++..
T Consensus        35 ~~~~~D~~~~E~~rgiti~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~  107 (270)
T cd01886          35 GGATMDFMEQERERGITIQSAATTCFWK-------DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTET  107 (270)
T ss_pred             CccccCCCccccCCCcCeeccEEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHH
Confidence            3567888899999999999999999998       789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhhh--cCChHHHHHhHHHHHHHHHhhhhhhc
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILEM--KLSPLDIYVHLSQLLEQVNAVMGELF  136 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~~~  136 (161)
                      +++.+...++|+++++||+|+...+.  .+...+...+...+..++|++.+..|
T Consensus       108 ~~~~~~~~~~p~ivviNK~D~~~a~~~~~~~~l~~~l~~~~~~~~~Pisa~~~f  161 (270)
T cd01886         108 VWRQADRYNVPRIAFVNKMDRTGADFFRVVEQIREKLGANPVPLQLPIGEEDDF  161 (270)
T ss_pred             HHHHHHHcCCCEEEEEECCCCCCCCHHHHHHHHHHHhCCCceEEEeccccCCCc
Confidence            99999889999999999999975432  11111222222234455777776554

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

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.82  E-value=1.5e-19  Score=162.58  Aligned_cols=131  Identities=50%  Similarity=0.858  Sum_probs=116.6

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecCC---------CCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEe
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDNK---------DTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD   73 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~---------~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd   73 (161)
                      +|+++++|..++|+++|+|++....++.|....         ..+.++.++|+|||||.+|...+..+++.+|++|+|+|
T Consensus        51 ~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvd  130 (843)
T PLN00116         51 AGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVD  130 (843)
T ss_pred             CCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEE
Confidence            577888999999999999999998888885210         12347899999999999999999999999999999999


Q ss_pred             CCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhh
Q psy2609          74 CVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMG  133 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (161)
                      +.+|+..+++.+|+++...++|+|+++||+|+...+..++..++|..+..++++++..+.
T Consensus       131 a~~Gv~~~t~~~~~~~~~~~~p~i~~iNK~D~~~~~~~~~~~~~~~~~~~vi~~in~~~~  190 (843)
T PLN00116        131 CIEGVCVQTETVLRQALGERIRPVLTVNKMDRCFLELQVDGEEAYQTFSRVIENANVIMA  190 (843)
T ss_pred             CCCCCcccHHHHHHHHHHCCCCEEEEEECCcccchhhcCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999888888899999999999999985543

>PTZ00416 elongation factor 2; Provisional

Probab=99.82  E-value=1.6e-19  Score=162.17  Aligned_cols=131  Identities=53%  Similarity=0.941  Sum_probs=116.4

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecCC---CCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDNK---DTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~---~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +|+++++|..++|++||+|++....++.|....   ..++++.++|+|||||.+|...+..+++.+|++|+|+|+..|+.
T Consensus        51 ~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~  130 (836)
T PTZ00416         51 AGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVC  130 (836)
T ss_pred             CCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcC
Confidence            577888999999999999999988888886211   11336789999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhh
Q psy2609          80 AQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMG  133 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (161)
                      .+++.+|+.+...++|+|+|+||+|+.-.+..+.+.++|..+..++++++..+.
T Consensus       131 ~~t~~~~~~~~~~~~p~iv~iNK~D~~~~~~~~~~~~~~~~~~~ii~~in~~l~  184 (836)
T PTZ00416        131 VQTETVLRQALQERIRPVLFINKVDRAILELQLDPEEIYQNFVKTIENVNVIIA  184 (836)
T ss_pred             ccHHHHHHHHHHcCCCEEEEEEChhhhhhhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999998777788899999999999999887655

>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=99.81  E-value=1.1e-19  Score=136.81  Aligned_cols=96  Identities=42%  Similarity=0.544  Sum_probs=87.9

Q ss_pred             cccCCchhHHHcCCccccceEEEE--eecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLY--YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~--~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +++|..++|+++|+|++.....+.  +.       .++++|+|||||.+|...+..+++.+|++|+|+|+.+|+..++.+
T Consensus        41 ~~~~~~~~e~~~~~ti~~~~~~~~~~~~-------~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~  113 (188)
T PF00009_consen   41 AFLDKHPEERERGITIDLSFISFEKNEN-------NRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEE  113 (188)
T ss_dssp             CHHHSSHHHHHCTSSSSSEEEEEEBTES-------SEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHH
T ss_pred             ccccccchhhhccccccccccccccccc-------ccceeecccccccceeecccceecccccceeeeeccccccccccc
Confidence            456788999999999999988888  55       889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++..+...++|+|+|+||+|+...+
T Consensus       114 ~l~~~~~~~~p~ivvlNK~D~~~~~  138 (188)
T PF00009_consen  114 HLKILRELGIPIIVVLNKMDLIEKE  138 (188)
T ss_dssp             HHHHHHHTT-SEEEEEETCTSSHHH
T ss_pred             ccccccccccceEEeeeeccchhhh
Confidence            9999999999999999999998544

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 ....

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.80  E-value=6.5e-19  Score=156.59  Aligned_cols=129  Identities=43%  Similarity=0.737  Sum_probs=110.6

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhH
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQT   82 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~   82 (161)
                      .|+++++|..++|++||+|+++...++.|...   +++++++|+|||||++|...+..+++.+|++|+|+|+..|+..++
T Consensus        52 ~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~---~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t  128 (731)
T PRK07560         52 AGEQLALDFDEEEQARGITIKAANVSMVHEYE---GKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQT  128 (731)
T ss_pred             cCcceecCccHHHHHhhhhhhccceEEEEEec---CCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccH
Confidence            46778899999999999999999888887321   458899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhh
Q psy2609          83 QVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGE  134 (161)
Q Consensus        83 ~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  134 (161)
                      +.+|+.+...++|.|+|+||+|+...+......+.+..+....+.+...+..
T Consensus       129 ~~~~~~~~~~~~~~iv~iNK~D~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~  180 (731)
T PRK07560        129 ETVLRQALRERVKPVLFINKVDRLIKELKLTPQEMQQRLLKIIKDVNKLIKG  180 (731)
T ss_pred             HHHHHHHHHcCCCeEEEEECchhhcccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999988888899999999999987776666677777777766666655443

>KOG0462|consensus

Probab=99.80  E-value=2e-19  Score=151.50  Aligned_cols=103  Identities=45%  Similarity=0.691  Sum_probs=97.0

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhH
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQT   82 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~   82 (161)
                      .|.-+++|++.-|+|||||+++...++.|..    +..+.+++||||||.+|..++...+..||++|+|+|+.+|+..|+
T Consensus        91 ~~q~q~LDkl~vERERGITIkaQtasify~~----~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT  166 (650)
T KOG0462|consen   91 IGQEQVLDKLQVERERGITIKAQTASIFYKD----GQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQT  166 (650)
T ss_pred             CchhhhhhhhhhhhhcCcEEEeeeeEEEEEc----CCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHH
Confidence            4677899999999999999999999999984    667999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          83 QVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        83 ~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ...+..+...+..+|.|+||+|++.++
T Consensus       167 ~anf~lAfe~~L~iIpVlNKIDlp~ad  193 (650)
T KOG0462|consen  167 VANFYLAFEAGLAIIPVLNKIDLPSAD  193 (650)
T ss_pred             HHHHHHHHHcCCeEEEeeeccCCCCCC
Confidence            999888889999999999999999876

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=4.1e-18  Score=130.70  Aligned_cols=128  Identities=50%  Similarity=0.827  Sum_probs=102.8

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      |.++++|..++|+++|+|+......+.+...  .++.+++++|||||+++|...+..++..+|++++|+|+..+...++.
T Consensus        36 ~~~~~~d~~~~e~~~giti~~~~~~~~~~~~--~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~  113 (213)
T cd04167          36 KPLRYTDIRKDEQERGISIKSSPISLVLPDS--KGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTE  113 (213)
T ss_pred             CceeECCCCHHHHHcCccccccceeEEEEcC--CCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHH
Confidence            3456778889999999999988888877521  14468999999999999999999999999999999999988877777


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhh
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMG  133 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (161)
                      .+++.....++|+++|+||+|+...+..+...+.+.++....+.++..+.
T Consensus       114 ~~~~~~~~~~~p~iiviNK~D~~~~~~~l~~~~~~~~l~~~i~~~n~~~~  163 (213)
T cd04167         114 RLIRHAILEGLPIVLVINKIDRLILELKLPPNDAYFKLRHIIDEVNNIIA  163 (213)
T ss_pred             HHHHHHHHcCCCEEEEEECcccCcccccCCHHHHHHHHHHHHHHHHHHHH
Confidence            77777766789999999999987544444556666677776666665554

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.79  E-value=1.3e-18  Score=132.35  Aligned_cols=94  Identities=28%  Similarity=0.407  Sum_probs=84.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +.+|..++|+++|+|++.....+.+.       +.+++|+|||||.+|...+..++..+|++++|+|+..++..++.+++
T Consensus        38 ~~~d~~~~E~~rg~Ti~~~~~~~~~~-------~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~  110 (195)
T cd01884          38 DEIDKAPEEKARGITINTAHVEYETA-------NRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHL  110 (195)
T ss_pred             ccccCChhhhhcCccEEeeeeEecCC-------CeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHH
Confidence            45788899999999999877666554       77999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCC-cEEEEECCcchh
Q psy2609          87 KQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        87 ~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      ..+...++| +|+|+||+|+..
T Consensus       111 ~~~~~~~~~~iIvviNK~D~~~  132 (195)
T cd01884         111 LLARQVGVPYIVVFLNKADMVD  132 (195)
T ss_pred             HHHHHcCCCcEEEEEeCCCCCC
Confidence            999989998 678999999963

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.79  E-value=2.4e-18  Score=134.46  Aligned_cols=97  Identities=37%  Similarity=0.591  Sum_probs=89.3

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|..++|+++|+|+......+.|.       ++++++|||||+.+|...+..+++.+|++++|+|+.+++..++..+
T Consensus        36 ~~~~D~~~~e~~rg~ti~~~~~~~~~~-------~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~  108 (237)
T cd04168          36 TTRTDTMELERQRGITIFSAVASFQWE-------DTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRIL  108 (237)
T ss_pred             cccCCCchhHhhCCCceeeeeEEEEEC-------CEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHH
Confidence            466788899999999999998888887       7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++.+...++|+++|+||+|+...+
T Consensus       109 ~~~~~~~~~P~iivvNK~D~~~a~  132 (237)
T cd04168         109 WRLLRKLNIPTIIFVNKIDRAGAD  132 (237)
T ss_pred             HHHHHHcCCCEEEEEECccccCCC
Confidence            998888899999999999997644

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.78  E-value=2.4e-18  Score=149.61  Aligned_cols=96  Identities=41%  Similarity=0.651  Sum_probs=89.3

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|..++|+++|+|+......+.|.       +++++|||||||.+|...+..+++.+|++++|+|+.+++..++..+
T Consensus        36 ~~~~D~~~~ErerGiTI~~~~~~v~~~-------~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~  108 (594)
T TIGR01394        36 ERVMDSNDLERERGITILAKNTAIRYN-------GTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFV  108 (594)
T ss_pred             eecccCchHHHhCCccEEeeeEEEEEC-------CEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHH
Confidence            356788889999999999999999998       7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCcEEEEECCcchhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+...++|+|+|+||+|+...
T Consensus       109 l~~a~~~~ip~IVviNKiD~~~a  131 (594)
T TIGR01394       109 LKKALELGLKPIVVINKIDRPSA  131 (594)
T ss_pred             HHHHHHCCCCEEEEEECCCCCCc
Confidence            99999999999999999998653

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.

>cd04169 RF3 RF3 subfamily

Probab=99.78  E-value=6.5e-19  Score=139.89  Aligned_cols=98  Identities=32%  Similarity=0.515  Sum_probs=88.6

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +.+++|..++|+++|+|+......+.|.       ++++++|||||+.+|...+..+++.+|++|+|+|++.++..++..
T Consensus        42 ~~t~~D~~~~e~~rg~si~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~  114 (267)
T cd04169          42 KHATSDWMEIEKQRGISVTSSVMQFEYR-------DCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRK  114 (267)
T ss_pred             CCccCCCcHHHHhCCCCeEEEEEEEeeC-------CEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHH
Confidence            3456788899999999999998899888       789999999999999999999999999999999999998888888


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++.....++|+++++||+|+....
T Consensus       115 i~~~~~~~~~P~iivvNK~D~~~a~  139 (267)
T cd04169         115 LFEVCRLRGIPIITFINKLDREGRD  139 (267)
T ss_pred             HHHHHHhcCCCEEEEEECCccCCCC
Confidence            8888877899999999999987654

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.

>cd01890 LepA LepA subfamily

Probab=99.77  E-value=3e-18  Score=126.85  Aligned_cols=96  Identities=46%  Similarity=0.713  Sum_probs=77.8

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA   89 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~   89 (161)
                      +..+.|+.+|+|+......+.|...  +++.++++||||||+++|...+..+++.+|++|+|+|++++...++...+..+
T Consensus        38 ~~~~~~~~~g~t~~~~~~~~~~~~~--~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~  115 (179)
T cd01890          38 DSMDLERERGITIKAQTVRLNYKAK--DGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLA  115 (179)
T ss_pred             cCChhHHHCCCeEecceEEEEEecC--CCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHH
Confidence            3344567889998877766666310  15578999999999999999999999999999999999988777777766666


Q ss_pred             HHcCCCcEEEEECCcchh
Q psy2609          90 WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~  107 (161)
                      ...++|+++|+||+|+..
T Consensus       116 ~~~~~~iiiv~NK~Dl~~  133 (179)
T cd01890         116 LENNLEIIPVINKIDLPS  133 (179)
T ss_pred             HHcCCCEEEEEECCCCCc
Confidence            667899999999999864

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.

>PRK12739 elongation factor G; Reviewed

Probab=99.77  E-value=8.7e-19  Score=154.97  Aligned_cols=98  Identities=39%  Similarity=0.609  Sum_probs=91.7

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      .++++|..++|++||+|++....++.|.       +++++|||||||.+|...+..+++.+|++|+|+|+..++..+++.
T Consensus        44 ~~~~~D~~~~E~~rgiti~~~~~~~~~~-------~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~  116 (691)
T PRK12739         44 GAATMDWMEQEQERGITITSAATTCFWK-------GHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSET  116 (691)
T ss_pred             CccccCCChhHhhcCCCccceeEEEEEC-------CEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHH
Confidence            4578899999999999999999999997       889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++..+...++|+|+++||+|+...+
T Consensus       117 i~~~~~~~~~p~iv~iNK~D~~~~~  141 (691)
T PRK12739        117 VWRQADKYGVPRIVFVNKMDRIGAD  141 (691)
T ss_pred             HHHHHHHcCCCEEEEEECCCCCCCC
Confidence            9999999999999999999998643

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.77  E-value=4e-18  Score=139.99  Aligned_cols=97  Identities=30%  Similarity=0.467  Sum_probs=86.9

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------C
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------I   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~   78 (161)
                      +|+||.+++||+||+|++.....|+-.       .+.++|+|||||.+|...+..+.+.||++|||+|+..+       +
T Consensus        57 awvlD~tkeERerGvTi~~~~~~fet~-------k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~  129 (428)
T COG5256          57 AWVLDKTKEERERGVTIDVAHSKFETD-------KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGV  129 (428)
T ss_pred             EEEecCChhHHhcceEEEEEEEEeecC-------CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCcccccccc
Confidence            378999999999999999887777654       78999999999999999999999999999999999987       7


Q ss_pred             ChhHHHHHHHHHHcCCCc-EEEEECCcchhhh
Q psy2609          79 CAQTQVALKQAWLEKIQP-ILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~  109 (161)
                      ..|+.+++-+++..++.. |+++||||+...+
T Consensus       130 ~gQtrEH~~La~tlGi~~lIVavNKMD~v~wd  161 (428)
T COG5256         130 GGQTREHAFLARTLGIKQLIVAVNKMDLVSWD  161 (428)
T ss_pred             CCchhHHHHHHHhcCCceEEEEEEcccccccC
Confidence            899999998888888886 5789999998643

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.76  E-value=5.8e-18  Score=141.58  Aligned_cols=95  Identities=25%  Similarity=0.359  Sum_probs=85.9

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      +|++|..++|++||+|++.....+.+.       +.+++|||||||++|...+..++..+|++++|+|+..|+..++.++
T Consensus        52 ~~~~D~~~eE~~rgiTid~~~~~~~~~-------~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~  124 (406)
T TIGR02034        52 ALLVDGLQAEREQGITIDVAYRYFSTD-------KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRH  124 (406)
T ss_pred             eeeccCChHHhcCCcCeEeeeEEEccC-------CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHH
Confidence            368999999999999999988887776       7799999999999999999999999999999999999999999998


Q ss_pred             HHHHHHcCCC-cEEEEECCcchh
Q psy2609          86 LKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        86 ~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +..+...++| +|+|+||+|+..
T Consensus       125 ~~~~~~~~~~~iivviNK~D~~~  147 (406)
T TIGR02034       125 SYIASLLGIRHVVLAVNKMDLVD  147 (406)
T ss_pred             HHHHHHcCCCcEEEEEEeccccc
Confidence            8888777776 577999999974

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).

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.76  E-value=1.6e-18  Score=148.94  Aligned_cols=99  Identities=31%  Similarity=0.486  Sum_probs=90.5

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      |+.+++|+++.|+++|+|+.....++.|.       ++++++||||||.+|...+..+++.+|++|+|+|++.++..++.
T Consensus        49 ~~~~~~D~~~~E~~rgiSi~~~~~~~~~~-------~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~  121 (526)
T PRK00741         49 GRHATSDWMEMEKQRGISVTSSVMQFPYR-------DCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTR  121 (526)
T ss_pred             CccccCCCcHHHHhhCCceeeeeEEEEEC-------CEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHH
Confidence            34456799999999999999998888887       78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .+++.+...++|+++++||+|+...+
T Consensus       122 ~l~~~~~~~~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741        122 KLMEVCRLRDTPIFTFINKLDRDGRE  147 (526)
T ss_pred             HHHHHHHhcCCCEEEEEECCcccccC
Confidence            99998888999999999999987654

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.76  E-value=2.9e-18  Score=141.53  Aligned_cols=109  Identities=30%  Similarity=0.494  Sum_probs=97.7

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      |+-...|++..|++|||++-++..+|.|.       ++.++++|||||++|..-+...|..+|.++.|+|+.+|+.+++.
T Consensus        51 ~~~a~SDWM~iEkqRGISVtsSVMqF~Y~-------~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~  123 (528)
T COG4108          51 GKHAKSDWMEIEKQRGISVTSSVMQFDYA-------DCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTL  123 (528)
T ss_pred             CcccccHHHHHHHhcCceEEeeEEEeccC-------CeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHH
Confidence            34445699999999999999999999998       88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHH
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQ  123 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~  123 (161)
                      .+.+.++..++|++-++||+|+...+    +.+...++..
T Consensus       124 KLfeVcrlR~iPI~TFiNKlDR~~rd----P~ELLdEiE~  159 (528)
T COG4108         124 KLFEVCRLRDIPIFTFINKLDREGRD----PLELLDEIEE  159 (528)
T ss_pred             HHHHHHhhcCCceEEEeeccccccCC----hHHHHHHHHH
Confidence            99999999999999999999998765    4555555443

>PRK00007 elongation factor G; Reviewed

Probab=99.76  E-value=1.7e-18  Score=153.12  Aligned_cols=98  Identities=40%  Similarity=0.608  Sum_probs=92.0

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +++++|..++|+++|+|++....++.|.       +++++|+|||||.+|...+..+++.+|++|+|+|+..|+..++..
T Consensus        46 ~~~~~D~~~~E~~rg~ti~~~~~~~~~~-------~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~  118 (693)
T PRK00007         46 GAATMDWMEQEQERGITITSAATTCFWK-------DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSET  118 (693)
T ss_pred             CcccCCCCHHHHhCCCCEeccEEEEEEC-------CeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHH
Confidence            4578899999999999999999999998       789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++.++...++|+|+|+||+|+...+
T Consensus       119 ~~~~~~~~~~p~iv~vNK~D~~~~~  143 (693)
T PRK00007        119 VWRQADKYKVPRIAFVNKMDRTGAD  143 (693)
T ss_pred             HHHHHHHcCCCEEEEEECCCCCCCC
Confidence            9999999999999999999998644

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.76  E-value=6.4e-18  Score=130.35  Aligned_cols=94  Identities=29%  Similarity=0.406  Sum_probs=81.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC-------CCC
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE-------GIC   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~-------~~~   79 (161)
                      +++|..++|+++|+|++.....+.+.       +++++||||||+.+|...+..+++.+|++|+|+|+++       +..
T Consensus        50 ~~~d~~~~E~~rg~T~d~~~~~~~~~-------~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~  122 (219)
T cd01883          50 WVLDTLKEERERGVTIDVGLAKFETE-------KYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKG  122 (219)
T ss_pred             hhhcCCHHHhhCccCeecceEEEeeC-------CeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccc
Confidence            58899999999999999999988887       7899999999999999999999999999999999987       455


Q ss_pred             hhHHHHHHHHHHcC-CCcEEEEECCcchh
Q psy2609          80 AQTQVALKQAWLEK-IQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~~~~~~~~-~p~ilv~NK~Dl~~  107 (161)
                      .++...+......+ .|+++|+||+|+..
T Consensus       123 ~~~~~~~~~~~~~~~~~iiivvNK~Dl~~  151 (219)
T cd01883         123 GQTREHALLARTLGVKQLIVAVNKMDDVT  151 (219)
T ss_pred             cchHHHHHHHHHcCCCeEEEEEEcccccc
Confidence            56667666665566 56788999999973

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

>KOG0084|consensus

Probab=99.76  E-value=1.9e-18  Score=129.34  Aligned_cols=102  Identities=17%  Similarity=0.112  Sum_probs=83.2

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +.||+=++     |.+++++...|.++....++.+.     ++..++++|||+|++||+..+.+||++|+++|+|+|.++
T Consensus        19 ~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~-----gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~   93 (205)
T KOG0084|consen   19 GVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELD-----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITK   93 (205)
T ss_pred             CcChhhhhhhhccCCcchhhcceeeeEEEEEEeeec-----ceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEccc
Confidence            56776554     77789999999999998999888     779999999999999999999999999999999999997


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ..+.   ..++|.+||+||+|+...
T Consensus        94 ~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~  129 (205)
T KOG0084|consen   94 QESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEK  129 (205)
T ss_pred             HHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhh
Confidence            5544443333 1222   257899999999999754

>KOG0469|consensus

Probab=99.76  E-value=7.7e-19  Score=147.12  Aligned_cols=134  Identities=49%  Similarity=0.876  Sum_probs=121.6

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCC---------CCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNK---------DTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~---------~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVv   72 (161)
                      .||.+||+|..+.|++|||||+...+++.+....         .++.++.+++||.|||-+|.+++..+++..|++++|+
T Consensus        50 kaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVV  129 (842)
T KOG0469|consen   50 KAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVV  129 (842)
T ss_pred             ccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeEEeccCCCcccchhhhhheeEeccCcEEEE
Confidence            4799999999999999999999999988775332         1566899999999999999999999999999999999


Q ss_pred             eCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhh
Q psy2609          73 DCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGEL  135 (161)
Q Consensus        73 d~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  135 (161)
                      |+.+|+.-|++..+++.....+..++++||+|++--+.++..++.|+-+++..+.+++.+..+
T Consensus       130 Dcv~GvCVQTETVLrQA~~ERIkPvlv~NK~DRAlLELq~~~EeLyqtf~R~VE~vNviisTy  192 (842)
T KOG0469|consen  130 DCVSGVCVQTETVLRQAIAERIKPVLVMNKMDRALLELQLSQEELYQTFQRIVENVNVIISTY  192 (842)
T ss_pred             EccCceEechHHHHHHHHHhhccceEEeehhhHHHHhhcCCHHHHHHHHHHHHhcccEEEEec
Confidence            999999999999999999999999999999999888888999999999999999988776653

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.76  E-value=4.3e-18  Score=143.84  Aligned_cols=94  Identities=29%  Similarity=0.410  Sum_probs=83.8

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------   78 (161)
                      +|++|..++|+++|+|++.....+.+.       ++.++|+|||||++|.+.+..+++.+|++|+|+|++.|.       
T Consensus        57 a~~~D~~~~Er~rGiTi~~~~~~~~~~-------~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~  129 (447)
T PLN00043         57 AWVLDKLKAERERGITIDIALWKFETT-------KYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISK  129 (447)
T ss_pred             hhhhcCCHhHHhcCceEEEEEEEecCC-------CEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCC
Confidence            578999999999999999877766655       889999999999999999999999999999999999863       


Q ss_pred             ChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          79 CAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      ..++.+++..+...++|. |+|+||||+.
T Consensus       130 ~~qT~eh~~~~~~~gi~~iIV~vNKmD~~  158 (447)
T PLN00043        130 DGQTREHALLAFTLGVKQMICCCNKMDAT  158 (447)
T ss_pred             CchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence            268888998888889975 7789999986

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.75  E-value=2.1e-18  Score=143.55  Aligned_cols=134  Identities=36%  Similarity=0.539  Sum_probs=108.7

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +..++|.+.-|++||||++.....+.|...  +++.|.+++||||||-+|.-++..++..|.++++|+|+++|++.|+..
T Consensus        42 ~~Q~LDsMdiERERGITIKaq~v~l~Yk~~--~g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlA  119 (603)
T COG0481          42 RAQVLDSMDIERERGITIKAQAVRLNYKAK--DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLA  119 (603)
T ss_pred             HHHhhhhhhhHhhcCceEEeeEEEEEEEeC--CCCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHH
Confidence            456789999999999999999999998742  257899999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHH-----HHHHhhhhhhchhhhhhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLL-----EQVNAVMGELFASQVMDET  144 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~~~~~~~~~~~~  144 (161)
                      ....+...+..+|-|+||+||+.++    +.....++..++     +.+-+++-++.+.+.+.+.
T Consensus       120 N~YlAle~~LeIiPViNKIDLP~Ad----pervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~  180 (603)
T COG0481         120 NVYLALENNLEIIPVLNKIDLPAAD----PERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEA  180 (603)
T ss_pred             HHHHHHHcCcEEEEeeecccCCCCC----HHHHHHHHHHHhCCCcchheeEecccCCCHHHHHHH
Confidence            8888888899999999999999876    344444444322     2334455555555555544

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.75  E-value=1.2e-17  Score=145.48  Aligned_cols=102  Identities=44%  Similarity=0.667  Sum_probs=89.9

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      ..+++|.+++|+++|+|++....++.|..  .+++.++++|||||||.+|...+..+++.+|++|+|+|+++++..++..
T Consensus        40 ~~~~lD~~~~ErerGiTi~~~~v~~~~~~--~dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~  117 (600)
T PRK05433         40 KAQVLDSMDLERERGITIKAQAVRLNYKA--KDGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLA  117 (600)
T ss_pred             ccccccCchHHhhcCCcccccEEEEEEEc--cCCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHH
Confidence            35678889999999999999888888852  1256789999999999999999999999999999999999999989888


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+..+...++|+++|+||+|+...
T Consensus       118 ~~~~~~~~~lpiIvViNKiDl~~a  141 (600)
T PRK05433        118 NVYLALENDLEIIPVLNKIDLPAA  141 (600)
T ss_pred             HHHHHHHCCCCEEEEEECCCCCcc
Confidence            888777789999999999998643

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.75  E-value=1.2e-17  Score=141.23  Aligned_cols=93  Identities=31%  Similarity=0.434  Sum_probs=84.6

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------C
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------C   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------~   79 (161)
                      |++|..++|+++|+|++.....+.+.       +++++|+|||||++|...+..++..+|++++|+|+..|+       .
T Consensus        58 ~~~D~~~~Er~rGiTid~~~~~~~~~-------~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~  130 (446)
T PTZ00141         58 WVLDKLKAERERGITIDIALWKFETP-------KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKD  130 (446)
T ss_pred             hhhcCChHHHhcCEeEEeeeEEEccC-------CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCC
Confidence            57899999999999999887777665       789999999999999999999999999999999999887       4


Q ss_pred             hhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          80 AQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .++.+++..+...++|. |+|+||||+.
T Consensus       131 ~qT~eh~~~~~~~gi~~iiv~vNKmD~~  158 (446)
T PTZ00141        131 GQTREHALLAFTLGVKQMIVCINKMDDK  158 (446)
T ss_pred             ccHHHHHHHHHHcCCCeEEEEEEccccc
Confidence            79999999999999986 5899999954

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.75  E-value=6.7e-18  Score=140.34  Aligned_cols=96  Identities=41%  Similarity=0.651  Sum_probs=91.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      |++|....|++|||||-++...+.|+       +++|+|+|||||.+|..++...++-+|++++++|+.+|+.+|+...+
T Consensus        41 RvMDSnDlEkERGITILaKnTav~~~-------~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVl  113 (603)
T COG1217          41 RVMDSNDLEKERGITILAKNTAVNYN-------GTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVL  113 (603)
T ss_pred             hhcCccchhhhcCcEEEeccceeecC-------CeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCchhhhH
Confidence            56888899999999999999999999       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.+.+.+.+.|+|+||+|.+.+.
T Consensus       114 kKAl~~gL~PIVVvNKiDrp~Ar  136 (603)
T COG1217         114 KKALALGLKPIVVINKIDRPDAR  136 (603)
T ss_pred             HHHHHcCCCcEEEEeCCCCCCCC
Confidence            99999999999999999998764

>KOG0468|consensus

Probab=99.75  E-value=1.5e-17  Score=142.84  Aligned_cols=127  Identities=39%  Similarity=0.744  Sum_probs=116.0

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      ..+++|.+..|++||++|+..-.++.....  .++++-++|+|||||-.|..++..+++.+|++++|+|+.+|+...++.
T Consensus       163 ~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~--~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr  240 (971)
T KOG0468|consen  163 DLRYTDTLFYEQERGCSIKSTPVTLVLSDS--KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTER  240 (971)
T ss_pred             cccccccchhhHhcCceEeecceEEEEecC--cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHH
Confidence            457899999999999999988887776532  377889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMG  133 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (161)
                      +++.+...++|+++|+||+|+...+..+++..+|.+|..++++++..+.
T Consensus       241 ~ikhaiq~~~~i~vviNKiDRLilELkLPP~DAY~KLrHii~~iN~~is  289 (971)
T KOG0468|consen  241 IIKHAIQNRLPIVVVINKVDRLILELKLPPMDAYYKLRHIIDEINNLIS  289 (971)
T ss_pred             HHHHHHhccCcEEEEEehhHHHHHHhcCChHHHHHHHHHHHHHhcchhh
Confidence            9999999999999999999999989999999999999999999985554

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.75  E-value=1.5e-17  Score=144.81  Aligned_cols=100  Identities=44%  Similarity=0.679  Sum_probs=87.1

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|..++|+++|+|++....++.|...  ++..++++|||||||++|...+..+++.+|++|+|+|++++++.++...
T Consensus        37 ~~~~D~~~~ErerGiTi~~~~v~~~~~~~--~g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~  114 (595)
T TIGR01393        37 EQVLDSMDLERERGITIKAQAVRLNYKAK--DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLAN  114 (595)
T ss_pred             ccccCCChHHHhcCCCeeeeEEEEEEEcC--CCCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHH
Confidence            45667788899999999998888888511  1456899999999999999999999999999999999999999888888


Q ss_pred             HHHHHHcCCCcEEEEECCcchh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |..+...++|+++|+||+|+..
T Consensus       115 ~~~~~~~~ipiIiViNKiDl~~  136 (595)
T TIGR01393       115 VYLALENDLEIIPVINKIDLPS  136 (595)
T ss_pred             HHHHHHcCCCEEEEEECcCCCc
Confidence            7777778899999999999864

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.74  E-value=2.4e-17  Score=137.41  Aligned_cols=93  Identities=28%  Similarity=0.444  Sum_probs=82.7

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      ++|++++|+++|+|++.....+...       ..+++|||||||++|...+..++..+|++++|+|+.+|+..++.+++.
T Consensus        49 ~~d~~~~E~~rg~T~~~~~~~~~~~-------~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~  121 (394)
T PRK12736         49 SIDAAPEEKERGITINTAHVEYETE-------KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL  121 (394)
T ss_pred             hhcCCHHHHhcCccEEEEeeEecCC-------CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHH
Confidence            5788999999999999765554333       679999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCC-cEEEEECCcchh
Q psy2609          88 QAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        88 ~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      .+...++| +|+|+||+|+..
T Consensus       122 ~~~~~g~~~~IvviNK~D~~~  142 (394)
T PRK12736        122 LARQVGVPYLVVFLNKVDLVD  142 (394)
T ss_pred             HHHHcCCCEEEEEEEecCCcc
Confidence            99889999 468899999974

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.74  E-value=3.7e-17  Score=123.39  Aligned_cols=91  Identities=43%  Similarity=0.693  Sum_probs=76.8

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA   89 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~   89 (161)
                      |..+.|..+|+|+......+.+.       .+++.+|||||+++|...+..+++.+|++++|+|+++++..+...++..+
T Consensus        41 ~~~~~e~~~g~t~~~~~~~~~~~-------~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~  113 (194)
T cd01891          41 DSNDLERERGITILAKNTAVTYK-------DTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKA  113 (194)
T ss_pred             ccchhHHhcccccccceeEEEEC-------CEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHH
Confidence            33345777899888777777665       78999999999999999999999999999999999987767776666666


Q ss_pred             HHcCCCcEEEEECCcchh
Q psy2609          90 WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~  107 (161)
                      ...++|+++|+||+|+..
T Consensus       114 ~~~~~p~iiv~NK~Dl~~  131 (194)
T cd01891         114 LELGLKPIVVINKIDRPD  131 (194)
T ss_pred             HHcCCCEEEEEECCCCCC
Confidence            667899999999999964

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

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.74  E-value=3.4e-17  Score=145.44  Aligned_cols=126  Identities=44%  Similarity=0.749  Sum_probs=104.8

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      |+++++|..++|+++|+|+.....++.+...   ..+++++|||||||.+|...+..+++.+|++|+|+|+..|+..++.
T Consensus        52 ~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~---~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~  128 (720)
T TIGR00490        52 GQQLYLDFDEQEQERGITINAANVSMVHEYE---GNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTE  128 (720)
T ss_pred             CceeecCCCHHHHhhcchhhcccceeEEeec---CCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHH
Confidence            4556678889999999999988776544211   4589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhh
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVM  132 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (161)
                      .+++.+...++|+++|+||+|+...+......+.+..+......+...+
T Consensus       129 ~~~~~~~~~~~p~ivviNKiD~~~~~~~~~~~~~~~~~~~~~~~v~~~~  177 (720)
T TIGR00490       129 TVLRQALKENVKPVLFINKVDRLINELKLTPQELQERFIKIITEVNKLI  177 (720)
T ss_pred             HHHHHHHHcCCCEEEEEEChhcccchhcCCHHHHHHHHhhhhHHHHhhh
Confidence            9998888889999999999999877766666677777776665555554

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.74  E-value=5.8e-18  Score=149.73  Aligned_cols=96  Identities=38%  Similarity=0.620  Sum_probs=89.5

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+.+.|+++|+|++.....+.|.       +++++||||||+.+|...+..+++.+|++++|+|+.+++..++..++
T Consensus        48 ~~~D~~~~e~~rgiti~~~~~~~~~~-------~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~  120 (689)
T TIGR00484        48 ATMDWMEQEKERGITITSAATTVFWK-------GHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVW  120 (689)
T ss_pred             cccCCCHHHHhcCCCEecceEEEEEC-------CeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHH
Confidence            66788899999999999999999998       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+++|+||+|+...+
T Consensus       121 ~~~~~~~~p~ivviNK~D~~~~~  143 (689)
T TIGR00484       121 RQANRYEVPRIAFVNKMDKTGAN  143 (689)
T ss_pred             HHHHHcCCCEEEEEECCCCCCCC
Confidence            98888899999999999998644

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.73  E-value=4.7e-17  Score=124.52  Aligned_cols=95  Identities=24%  Similarity=0.334  Sum_probs=82.5

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|..+.|+++|+|++.....+.+.       +.++.||||||+++|...+..+++.+|++|+|+|++.++..++...
T Consensus        49 ~~~~d~~~~e~~rg~T~~~~~~~~~~~-------~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~  121 (208)
T cd04166          49 ALLVDGLQAEREQGITIDVAYRYFSTP-------KRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRH  121 (208)
T ss_pred             eeeccCChhhhcCCcCeecceeEEecC-------CceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHH
Confidence            467899999999999999988888776       6799999999999999888999999999999999999888777777


Q ss_pred             HHHHHHcCCC-cEEEEECCcchh
Q psy2609          86 LKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        86 ~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +..+...++| +|+|+||+|+..
T Consensus       122 ~~~~~~~~~~~iIvviNK~D~~~  144 (208)
T cd04166         122 SYILSLLGIRHVVVAVNKMDLVD  144 (208)
T ss_pred             HHHHHHcCCCcEEEEEEchhccc
Confidence            7777666765 567899999864

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.73  E-value=3.6e-17  Score=136.27  Aligned_cols=95  Identities=28%  Similarity=0.408  Sum_probs=83.3

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +.+|++++|+++|+|++.....+.+       ++.++.|||||||++|...+..++..+|++++|+|+.+|+..++.+++
T Consensus        48 ~~~d~~~~E~~rG~Ti~~~~~~~~~-------~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l  120 (394)
T TIGR00485        48 DQIDNAPEEKARGITINTAHVEYET-------ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHI  120 (394)
T ss_pred             ccccCCHHHHhcCcceeeEEEEEcC-------CCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHH
Confidence            3578899999999999976555433       377999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcE-EEEECCcchhh
Q psy2609          87 KQAWLEKIQPI-LVLNKIDRLIL  108 (161)
Q Consensus        87 ~~~~~~~~p~i-lv~NK~Dl~~~  108 (161)
                      ..+...++|.+ +|+||+|+...
T Consensus       121 ~~~~~~gi~~iIvvvNK~Dl~~~  143 (394)
T TIGR00485       121 LLARQVGVPYIVVFLNKCDMVDD  143 (394)
T ss_pred             HHHHHcCCCEEEEEEEecccCCH
Confidence            99888899976 68999999753

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.

>cd04171 SelB SelB subfamily

Probab=99.73  E-value=8.9e-18  Score=121.93  Aligned_cols=101  Identities=27%  Similarity=0.289  Sum_probs=79.1

Q ss_pred             ccccccccCCch--------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEe
Q psy2609           2 LCMVSSYMDSRK--------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD   73 (161)
Q Consensus         2 ~~g~~~~~D~~~--------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd   73 (161)
                      +||||++++.+.        .|..+++|++.....+.+.     . ..++.+|||||+++|...+..+++.+|++++|+|
T Consensus        10 ~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~-----~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d   83 (164)
T cd04171          10 DHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLP-----S-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVA   83 (164)
T ss_pred             CCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEec-----C-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEE
Confidence            689999976654        4556788887666555543     1 4689999999999999888899999999999999


Q ss_pred             CCCCCChhHHHHHHHHHHcCC-CcEEEEECCcchhh
Q psy2609          74 CVEGICAQTQVALKQAWLEKI-QPILVLNKIDRLIL  108 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~  108 (161)
                      ++++...+....+..+...+. |+++|+||+|+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          84 ADEGIMPQTREHLEILELLGIKRGLVVLTKADLVDE  119 (164)
T ss_pred             CCCCccHhHHHHHHHHHHhCCCcEEEEEECccccCH
Confidence            988766666665555544555 89999999999753

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

>TIGR00503 prfC peptide chain release factor 3

Probab=99.73  E-value=6.7e-18  Score=145.10  Aligned_cols=96  Identities=29%  Similarity=0.538  Sum_probs=88.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+.+.|+++|+|+......+.|+       +++++|||||||.+|...+..+++.+|++|+|+|++.++..++..++
T Consensus        53 t~~D~~~~E~~rgisi~~~~~~~~~~-------~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~  125 (527)
T TIGR00503        53 AKSDWMEMEKQRGISITTSVMQFPYR-------DCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLM  125 (527)
T ss_pred             ccCCCCHHHHhcCCcEEEEEEEEeeC-------CeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHH
Confidence            66899999999999999988888887       78999999999999999999999999999999999999998999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.+...++|+++++||+|+...+
T Consensus       126 ~~~~~~~~PiivviNKiD~~~~~  148 (527)
T TIGR00503       126 EVTRLRDTPIFTFMNKLDRDIRD  148 (527)
T ss_pred             HHHHhcCCCEEEEEECccccCCC
Confidence            88888899999999999986543

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.

>CHL00071 tufA elongation factor Tu

Probab=99.73  E-value=2.6e-17  Score=137.81  Aligned_cols=95  Identities=28%  Similarity=0.409  Sum_probs=84.5

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      .+|++++|+++|+|++.....+.+.       +.++.|+|||||++|...+..++..+|++++|+|+..++..++.+++.
T Consensus        49 ~~d~~~~e~~rg~T~~~~~~~~~~~-------~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~  121 (409)
T CHL00071         49 EIDSAPEEKARGITINTAHVEYETE-------NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHIL  121 (409)
T ss_pred             cccCChhhhcCCEeEEccEEEEccC-------CeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHH
Confidence            4688899999999999877665544       779999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCC-cEEEEECCcchhhh
Q psy2609          88 QAWLEKIQ-PILVLNKIDRLILE  109 (161)
Q Consensus        88 ~~~~~~~p-~ilv~NK~Dl~~~~  109 (161)
                      .+...++| +|+|+||+|+...+
T Consensus       122 ~~~~~g~~~iIvvvNK~D~~~~~  144 (409)
T CHL00071        122 LAKQVGVPNIVVFLNKEDQVDDE  144 (409)
T ss_pred             HHHHcCCCEEEEEEEccCCCCHH
Confidence            99889999 56899999997533

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.73  E-value=3.6e-17  Score=139.16  Aligned_cols=94  Identities=26%  Similarity=0.389  Sum_probs=83.2

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      |++|.+++|++||+|++.....+.+.       .++++|||||||++|...+..+++.+|++++|+|+..|+..++.+++
T Consensus        80 ~~~D~~~eEr~rgiTid~~~~~~~~~-------~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~  152 (474)
T PRK05124         80 LLVDGLQAEREQGITIDVAYRYFSTE-------KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS  152 (474)
T ss_pred             hhccCChHHhhcCCCeEeeEEEeccC-------CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH
Confidence            68999999999999999877766655       77999999999999999999999999999999999999988888888


Q ss_pred             HHHHHcCC-CcEEEEECCcchh
Q psy2609          87 KQAWLEKI-QPILVLNKIDRLI  107 (161)
Q Consensus        87 ~~~~~~~~-p~ilv~NK~Dl~~  107 (161)
                      ..+...++ |+|+|+||+|+..
T Consensus       153 ~l~~~lg~~~iIvvvNKiD~~~  174 (474)
T PRK05124        153 FIATLLGIKHLVVAVNKMDLVD  174 (474)
T ss_pred             HHHHHhCCCceEEEEEeecccc
Confidence            77777665 4678999999974

>PLN03127 Elongation factor Tu; Provisional

Probab=99.73  E-value=4.8e-17  Score=137.49  Aligned_cols=93  Identities=27%  Similarity=0.416  Sum_probs=83.4

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      .+|+.++|+++|+|++.....+.+.       +.++.|+|||||++|...+..++..+|++++|+|+.+++..++.+++.
T Consensus        98 ~~D~~~~E~~rGiTi~~~~~~~~~~-------~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~  170 (447)
T PLN03127         98 EIDKAPEEKARGITIATAHVEYETA-------KRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHIL  170 (447)
T ss_pred             cccCChhHhhcCceeeeeEEEEcCC-------CeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHH
Confidence            4788899999999999866655443       779999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCc-EEEEECCcchh
Q psy2609          88 QAWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        88 ~~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      .+...++|. |+++||+|+..
T Consensus       171 ~~~~~gip~iIvviNKiDlv~  191 (447)
T PLN03127        171 LARQVGVPSLVVFLNKVDVVD  191 (447)
T ss_pred             HHHHcCCCeEEEEEEeeccCC
Confidence            999999995 68899999975

>PLN03126 Elongation factor Tu; Provisional

Probab=99.72  E-value=5.9e-17  Score=137.84  Aligned_cols=95  Identities=26%  Similarity=0.395  Sum_probs=84.6

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      .++|..++|+++|+|++.....+.+.       +.+++|||||||++|...+..++..+|++++|+|+.+|+..++.+++
T Consensus       117 ~~~D~~~~Er~rGiTi~~~~~~~~~~-------~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~  189 (478)
T PLN03126        117 DEIDAAPEERARGITINTATVEYETE-------NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHI  189 (478)
T ss_pred             ccccCChhHHhCCeeEEEEEEEEecC-------CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHH
Confidence            34577788999999999877776655       67999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCC-cEEEEECCcchhh
Q psy2609          87 KQAWLEKIQ-PILVLNKIDRLIL  108 (161)
Q Consensus        87 ~~~~~~~~p-~ilv~NK~Dl~~~  108 (161)
                      ..+...++| +|+++||+|+...
T Consensus       190 ~~~~~~gi~~iIvvvNK~Dl~~~  212 (478)
T PLN03126        190 LLAKQVGVPNMVVFLNKQDQVDD  212 (478)
T ss_pred             HHHHHcCCCeEEEEEecccccCH
Confidence            999999999 5689999999753

>KOG0465|consensus

Probab=99.72  E-value=2.3e-18  Score=146.52  Aligned_cols=126  Identities=33%  Similarity=0.479  Sum_probs=108.9

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      |+...+|.++.|+++|||+......+.|.       ++.+++||||||-+|.-++..+++.-|++|+|+|+..|++.|+.
T Consensus        74 ~~~a~md~m~~er~rgITiqSAAt~~~w~-------~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~  146 (721)
T KOG0465|consen   74 GGGATMDSMELERQRGITIQSAATYFTWR-------DYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTE  146 (721)
T ss_pred             cCceeeehHHHHHhcCceeeeceeeeeec-------cceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhH
Confidence            34567899999999999999999999999       88999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHH--HHHHHHHhhhhhhc
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLS--QLLEQVNAVMGELF  136 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~  136 (161)
                      ..|+++.+.++|.|.++||||+..++..-...+.+.++.  .++-|+|+...+.|
T Consensus       147 tV~rQ~~ry~vP~i~FiNKmDRmGa~~~~~l~~i~~kl~~~~a~vqiPig~e~~f  201 (721)
T KOG0465|consen  147 TVWRQMKRYNVPRICFINKMDRMGASPFRTLNQIRTKLNHKPAVVQIPIGSESNF  201 (721)
T ss_pred             HHHHHHHhcCCCeEEEEehhhhcCCChHHHHHHHHhhcCCchheeEccccccccc
Confidence            999999999999999999999988775444455555555  34556666665544

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.72  E-value=5.5e-17  Score=136.29  Aligned_cols=95  Identities=31%  Similarity=0.475  Sum_probs=84.1

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC--CCChhHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE--GICAQTQ   83 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~--~~~~~~~   83 (161)
                      +|++|..++|+++|+|++.....+.+.       +++++|||||||++|...+..+++.+|++++|+|+++  ++..++.
T Consensus        56 ~~~~D~~~~Er~rG~T~d~~~~~~~~~-------~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~  128 (425)
T PRK12317         56 AWVMDRLKEERERGVTIDLAHKKFETD-------KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTR  128 (425)
T ss_pred             hhhhccCHhHhhcCccceeeeEEEecC-------CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchH
Confidence            467899999999999999988877765       7899999999999999988888999999999999998  8888888


Q ss_pred             HHHHHHHHcCC-CcEEEEECCcchh
Q psy2609          84 VALKQAWLEKI-QPILVLNKIDRLI  107 (161)
Q Consensus        84 ~~~~~~~~~~~-p~ilv~NK~Dl~~  107 (161)
                      +++..+...++ |+++|+||+|+..
T Consensus       129 ~~~~~~~~~~~~~iivviNK~Dl~~  153 (425)
T PRK12317        129 EHVFLARTLGINQLIVAINKMDAVN  153 (425)
T ss_pred             HHHHHHHHcCCCeEEEEEEcccccc
Confidence            88877777776 4788999999975

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.71  E-value=5.1e-17  Score=141.87  Aligned_cols=136  Identities=22%  Similarity=0.262  Sum_probs=100.1

Q ss_pred             cccccccc--------CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEe
Q psy2609           2 LCMVSSYM--------DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD   73 (161)
Q Consensus         2 ~~g~~~~~--------D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd   73 (161)
                      ++|||+++        |.+++|+++|+|++..+..+...      ++..+.|||||||++|.+.+..++..+|++++|+|
T Consensus        10 dhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~------~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVd   83 (614)
T PRK10512         10 DHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQP------DGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVA   83 (614)
T ss_pred             CCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecC------CCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEE
Confidence            57888774        56678999999998765554332      24578999999999999999999999999999999


Q ss_pred             CCCCCChhHHHHHHHHHHcCCCc-EEEEECCcchhhhhcCChHHHHHhHHHHH--------HHHHhhhhhhchhhhhhhh
Q psy2609          74 CVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRLILEMKLSPLDIYVHLSQLL--------EQVNAVMGELFASQVMDET  144 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~--------~~~~~~~~~~~~~~~~~~~  144 (161)
                      +++++.+++.+++..+...++|. |+|+||+|+...+.   ......++..++        ..+|+++..+.+.+.+.+.
T Consensus        84 a~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~---~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~  160 (614)
T PRK10512         84 CDDGVMAQTREHLAILQLTGNPMLTVALTKADRVDEAR---IAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREH  160 (614)
T ss_pred             CCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCCHHH---HHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHH
Confidence            99999999999998888888885 68999999975431   111222233222        2345555555566665555


Q ss_pred             hc
Q psy2609         145 AV  146 (161)
Q Consensus       145 ~~  146 (161)
                      =.
T Consensus       161 L~  162 (614)
T PRK10512        161 LL  162 (614)
T ss_pred             HH
Confidence            33

>cd01889 SelB_euk SelB subfamily

Probab=99.71  E-value=5.5e-17  Score=122.31  Aligned_cols=107  Identities=32%  Similarity=0.383  Sum_probs=84.1

Q ss_pred             cccccccc------------CCchhHHHcCCccccceEEEEeecCC-------CCCCceeEEEEeCCCchhhHHHHHHHH
Q psy2609           2 LCMVSSYM------------DSRKDEQERGITMKSSSISLYYKDNK-------DTPEEYLINLIDSPGHVDFSSEVSTAV   62 (161)
Q Consensus         2 ~~g~~~~~------------D~~~~E~~~giti~~~~~~~~~~~~~-------~~~~~~~i~iiDTpG~~~~~~~~~~~l   62 (161)
                      ++|||+++            |....|+++|+|++....++.+....       ..++.+++++|||||+..+......+.
T Consensus        10 ~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~   89 (192)
T cd01889          10 DSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRTIIGGA   89 (192)
T ss_pred             CCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHHHHHHH
Confidence            56777664            45567999999999888777765211       123478999999999998888888888


Q ss_pred             HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          63 RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        63 ~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +.+|++++|+|+..+...++...+......++|+++|+||+|+...
T Consensus        90 ~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~  135 (192)
T cd01889          90 QIIDLMLLVVDATKGIQTQTAECLVIGEILCKKLIVVLNKIDLIPE  135 (192)
T ss_pred             hhCCEEEEEEECCCCccHHHHHHHHHHHHcCCCEEEEEECcccCCH
Confidence            8999999999999888777766665555568899999999999743

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

>PRK10218 GTP-binding protein; Provisional

Probab=99.71  E-value=7.4e-17  Score=140.47  Aligned_cols=96  Identities=38%  Similarity=0.660  Sum_probs=88.5

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      |++|..+.|+++|+|+......+.|.       ++++++||||||.+|...+..+++.+|++|+|+|+.+++..++..++
T Consensus        41 ~v~D~~~~E~erGiTi~~~~~~i~~~-------~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l  113 (607)
T PRK10218         41 RVMDSNDLEKERGITILAKNTAIKWN-------DYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVT  113 (607)
T ss_pred             eeeccccccccCceEEEEEEEEEecC-------CEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHH
Confidence            66788888999999999988888887       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|.++|+||+|+....
T Consensus       114 ~~a~~~gip~IVviNKiD~~~a~  136 (607)
T PRK10218        114 KKAFAYGLKPIVVINKVDRPGAR  136 (607)
T ss_pred             HHHHHcCCCEEEEEECcCCCCCc
Confidence            98888999999999999997543

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.70  E-value=8.6e-17  Score=139.79  Aligned_cols=101  Identities=30%  Similarity=0.375  Sum_probs=88.6

Q ss_pred             cccccccc--------CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEe
Q psy2609           2 LCMVSSYM--------DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD   73 (161)
Q Consensus         2 ~~g~~~~~--------D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd   73 (161)
                      ++|||+++        |.+++|+++|+|++.....+.+.       ++.+.|||||||++|...+..++.++|++++|+|
T Consensus        10 d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~-------~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVD   82 (581)
T TIGR00475        10 DHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLP-------DYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVD   82 (581)
T ss_pred             CCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeC-------CEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEE
Confidence            68888885        45578999999999877766665       5899999999999999999999999999999999


Q ss_pred             CCCCCChhHHHHHHHHHHcCCC-cEEEEECCcchhhh
Q psy2609          74 CVEGICAQTQVALKQAWLEKIQ-PILVLNKIDRLILE  109 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~  109 (161)
                      +++++.+++.+++..+...++| +++|+||+|+...+
T Consensus        83 a~~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~  119 (581)
T TIGR00475        83 ADEGVMTQTGEHLAVLDLLGIPHTIVVITKADRVNEE  119 (581)
T ss_pred             CCCCCcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHH
Confidence            9999989999888888888999 89999999997543

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.70  E-value=1.8e-16  Score=132.28  Aligned_cols=93  Identities=29%  Similarity=0.419  Sum_probs=81.9

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      .+|++++|+++|+|++.....+.+.       +.+++|+|||||++|...+..++..+|++++|+|+.+++..++.+++.
T Consensus        49 ~~d~~~~E~~rGiT~~~~~~~~~~~-------~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~  121 (396)
T PRK12735         49 QIDNAPEEKARGITINTSHVEYETA-------NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHIL  121 (396)
T ss_pred             hccCChhHHhcCceEEEeeeEEcCC-------CcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHH
Confidence            5688899999999999765554433       679999999999999999999999999999999999999999999998


Q ss_pred             HHHHcCCCcE-EEEECCcchh
Q psy2609          88 QAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        88 ~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      .+...++|.+ +|+||+|+..
T Consensus       122 ~~~~~gi~~iivvvNK~Dl~~  142 (396)
T PRK12735        122 LARQVGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHcCCCeEEEEEEecCCcc
Confidence            8888899976 5799999974

>PRK00049 elongation factor Tu; Reviewed

Probab=99.70  E-value=1.9e-16  Score=132.08  Aligned_cols=93  Identities=28%  Similarity=0.419  Sum_probs=82.9

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      .+|+.++|+++|+|++.....+.+.       +.++.|+|||||++|...+..++..+|++++|+|+..++..++.+++.
T Consensus        49 ~~d~~~~E~~rg~Ti~~~~~~~~~~-------~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~  121 (396)
T PRK00049         49 QIDKAPEEKARGITINTAHVEYETE-------KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHIL  121 (396)
T ss_pred             hccCChHHHhcCeEEeeeEEEEcCC-------CeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHH
Confidence            5788899999999999775554433       779999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCcE-EEEECCcchh
Q psy2609          88 QAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        88 ~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      .+...++|.+ +++||+|+..
T Consensus       122 ~~~~~g~p~iiVvvNK~D~~~  142 (396)
T PRK00049        122 LARQVGVPYIVVFLNKCDMVD  142 (396)
T ss_pred             HHHHcCCCEEEEEEeecCCcc
Confidence            9988999986 5899999974

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.69  E-value=1.5e-16  Score=134.62  Aligned_cols=140  Identities=19%  Similarity=0.183  Sum_probs=99.4

Q ss_pred             cccccc--------cCCchhHHHcCCccccceEEEEeecC-----------CCCC---------------CceeEEEEeC
Q psy2609           3 CMVSSY--------MDSRKDEQERGITMKSSSISLYYKDN-----------KDTP---------------EEYLINLIDS   48 (161)
Q Consensus         3 ~g~~~~--------~D~~~~E~~~giti~~~~~~~~~~~~-----------~~~~---------------~~~~i~iiDT   48 (161)
                      .|||++        .|++++|.+||+|++..+..+.+...           .+.+               ...++.|+||
T Consensus        45 hGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~IDt  124 (460)
T PTZ00327         45 HGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKMTLKRHVSFVDC  124 (460)
T ss_pred             CCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccccccceEeeeeC
Confidence            567766        37889999999999987776532000           0000               0247999999


Q ss_pred             CCchhhHHHHHHHHHhcCEEEEEEeCCCC-CChhHHHHHHHHHHcCCC-cEEEEECCcchhhhhcCChHHHHHhHHHHH-
Q psy2609          49 PGHVDFSSEVSTAVRLCDGTIIVVDCVEG-ICAQTQVALKQAWLEKIQ-PILVLNKIDRLILEMKLSPLDIYVHLSQLL-  125 (161)
Q Consensus        49 pG~~~~~~~~~~~l~~~d~~ilVvd~~~~-~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~-  125 (161)
                      |||++|.+.+..++..+|++++|+|+.++ +..++.+++..+...++| +|+|+||+|+...+.   ..+.+.++..++ 
T Consensus       125 PGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~~---~~~~~~ei~~~l~  201 (460)
T PTZ00327        125 PGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQ---AQDQYEEIRNFVK  201 (460)
T ss_pred             CCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHHH---HHHHHHHHHHHHH
Confidence            99999999999999999999999999986 688888888877777776 578999999975432   223333333332 


Q ss_pred             -------HHHHhhhhhhchhhhhhhhh
Q psy2609         126 -------EQVNAVMGELFASQVMDETA  145 (161)
Q Consensus       126 -------~~~~~~~~~~~~~~~~~~~~  145 (161)
                             ..+|+++...-+.+.|.+.=
T Consensus       202 ~~~~~~~~iipVSA~~G~nI~~Ll~~L  228 (460)
T PTZ00327        202 GTIADNAPIIPISAQLKYNIDVVLEYI  228 (460)
T ss_pred             hhccCCCeEEEeeCCCCCCHHHHHHHH
Confidence                   23555655555666665553

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.69  E-value=7.3e-17  Score=123.06  Aligned_cols=106  Identities=24%  Similarity=0.233  Sum_probs=82.6

Q ss_pred             cccccc--------cCCchhHHHcCCccccceEEEEeecC--------------------------CCCCCceeEEEEeC
Q psy2609           3 CMVSSY--------MDSRKDEQERGITMKSSSISLYYKDN--------------------------KDTPEEYLINLIDS   48 (161)
Q Consensus         3 ~g~~~~--------~D~~~~E~~~giti~~~~~~~~~~~~--------------------------~~~~~~~~i~iiDT   48 (161)
                      +|||++        .|..++|.++|+|+......+.|...                          +......+++||||
T Consensus        11 ~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDt   90 (203)
T cd01888          11 HGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKLVRHVSFVDC   90 (203)
T ss_pred             CCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccccccEEEEEEC
Confidence            677775        36789999999999988777776400                          00012378999999


Q ss_pred             CCchhhHHHHHHHHHhcCEEEEEEeCCCC-CChhHHHHHHHHHHcCC-CcEEEEECCcchhh
Q psy2609          49 PGHVDFSSEVSTAVRLCDGTIIVVDCVEG-ICAQTQVALKQAWLEKI-QPILVLNKIDRLIL  108 (161)
Q Consensus        49 pG~~~~~~~~~~~l~~~d~~ilVvd~~~~-~~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~  108 (161)
                      |||++|...+..++..+|++++|+|++++ ...++...+..+...++ |+++|+||+|+...
T Consensus        91 PG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~  152 (203)
T cd01888          91 PGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKE  152 (203)
T ss_pred             CChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCH
Confidence            99999999999999999999999999974 55666667666655555 57889999999753

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.69  E-value=4.3e-17  Score=145.08  Aligned_cols=100  Identities=24%  Similarity=0.317  Sum_probs=88.0

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+|+|.......+.|.       +++++|||||||++|..++..+++.+|++|+|+|+++
T Consensus       300 d~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~-------~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAdd  372 (787)
T PRK05306        300 DHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN-------GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADD  372 (787)
T ss_pred             CCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC-------CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCC
Confidence            689999998763     3445788888877777776       5789999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++..++.+.+..+...++|+|+|+||+|+...
T Consensus       373 Gv~~qT~e~i~~a~~~~vPiIVviNKiDl~~a  404 (787)
T PRK05306        373 GVMPQTIEAINHAKAAGVPIIVAINKIDKPGA  404 (787)
T ss_pred             CCCHhHHHHHHHHHhcCCcEEEEEECcccccc
Confidence            99999999999888899999999999999653

>COG1159 Era GTPase [General function prediction only]

Probab=99.69  E-value=2e-17  Score=131.19  Aligned_cols=136  Identities=21%  Similarity=0.159  Sum_probs=105.5

Q ss_pred             ccccccccCCchhHHH------cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQE------RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~------~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |+||+|+++.+-.++-      +..|+.....  .+.     .++.|++|+||||.++        +...+..++..+|+
T Consensus        16 NvGKSTLlN~l~G~KisIvS~k~QTTR~~I~G--I~t-----~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDl   88 (298)
T COG1159          16 NVGKSTLLNALVGQKISIVSPKPQTTRNRIRG--IVT-----TDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDL   88 (298)
T ss_pred             CCcHHHHHHHHhcCceEeecCCcchhhhheeE--EEE-----cCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcE
Confidence            8999999998876653      3333332222  122     4488999999999753        67789999999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhh-cCChHHHHHhHHHHHHHHHhhhhhhchhhhhhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEM-KLSPLDIYVHLSQLLEQVNAVMGELFASQVMDET  144 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  144 (161)
                      ++||+|+++++...++.++..++..+.|+++++||+|+...+. .....+.+.....+.+.+|+++...-+.+.+.+.
T Consensus        89 ilfvvd~~~~~~~~d~~il~~lk~~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~  166 (298)
T COG1159          89 ILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEI  166 (298)
T ss_pred             EEEEEeccccCCccHHHHHHHHhhcCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHH
Confidence            9999999999999999999988887889999999999887654 2344555555566778899999888888877664

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.68  E-value=2.1e-16  Score=132.24  Aligned_cols=107  Identities=21%  Similarity=0.278  Sum_probs=84.7

Q ss_pred             cccccccc--------CCchhHHHcCCccccceEEEEeecC----------CC---CC------CceeEEEEeCCCchhh
Q psy2609           2 LCMVSSYM--------DSRKDEQERGITMKSSSISLYYKDN----------KD---TP------EEYLINLIDSPGHVDF   54 (161)
Q Consensus         2 ~~g~~~~~--------D~~~~E~~~giti~~~~~~~~~~~~----------~~---~~------~~~~i~iiDTpG~~~~   54 (161)
                      ++|||+++        |.+++|+++|+|++.....+.+...          ..   +.      ....++|||||||++|
T Consensus        14 ~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~liDtPGh~~f   93 (406)
T TIGR03680        14 DHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRVSFVDAPGHETL   93 (406)
T ss_pred             CCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEEEEEECCCHHHH
Confidence            57888775        8889999999999877655442200          00   00      2468999999999999


Q ss_pred             HHHHHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCCC-cEEEEECCcchhh
Q psy2609          55 SSEVSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKIQ-PILVLNKIDRLIL  108 (161)
Q Consensus        55 ~~~~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~  108 (161)
                      ...+..++..+|++++|+|++++. ..++.+++..+...+++ +++|+||+|+...
T Consensus        94 ~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~  149 (406)
T TIGR03680        94 MATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSK  149 (406)
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCCeEEEEEEccccCCH
Confidence            999999999999999999999887 77888888777766654 7899999999754

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.68  E-value=3.4e-16  Score=131.59  Aligned_cols=95  Identities=31%  Similarity=0.457  Sum_probs=80.2

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC---CChhH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG---ICAQT   82 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~---~~~~~   82 (161)
                      +|++|++++|+++|+|++.....+.+.       +++++|||||||++|...+..+++.+|++++|+|++++   ...++
T Consensus        57 ~~~~d~~~~e~~rg~Tid~~~~~~~~~-------~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t  129 (426)
T TIGR00483        57 AWVMDRLKEERERGVTIDVAHWKFETD-------KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQT  129 (426)
T ss_pred             hhhhccCHHHhhcCceEEEEEEEEccC-------CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCch
Confidence            477899999999999999887777665       78999999999999999999999999999999999988   55666


Q ss_pred             HHHHHHHHHcCC-CcEEEEECCcchh
Q psy2609          83 QVALKQAWLEKI-QPILVLNKIDRLI  107 (161)
Q Consensus        83 ~~~~~~~~~~~~-p~ilv~NK~Dl~~  107 (161)
                      .+++..+...++ |+|+|+||+|+..
T Consensus       130 ~~~~~~~~~~~~~~iIVviNK~Dl~~  155 (426)
T TIGR00483       130 REHAFLARTLGINQLIVAINKMDSVN  155 (426)
T ss_pred             HHHHHHHHHcCCCeEEEEEEChhccC
Confidence            666555555554 5778999999964

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.68  E-value=1.2e-16  Score=141.38  Aligned_cols=104  Identities=25%  Similarity=0.348  Sum_probs=88.4

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+|+|.......+.+...   +..+.++|||||||+.|..++..+++.+|++|+|+|+++
T Consensus       254 dvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~---~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~d  330 (742)
T CHL00189        254 DHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYK---DENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADD  330 (742)
T ss_pred             CCCHHHHHHHHHhccCccccCCccccccceEEEEEEec---CCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcC
Confidence            6899999987753     33468888777666666421   346899999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++..++.+.+..+...++|+|+|+||+|+...
T Consensus       331 Gv~~QT~E~I~~~k~~~iPiIVViNKiDl~~~  362 (742)
T CHL00189        331 GVKPQTIEAINYIQAANVPIIVAINKIDKANA  362 (742)
T ss_pred             CCChhhHHHHHHHHhcCceEEEEEECCCcccc
Confidence            99999999999888889999999999999753

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.67  E-value=1.4e-16  Score=138.41  Aligned_cols=100  Identities=27%  Similarity=0.385  Sum_probs=86.0

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+|+|.......+.+..      ..++.|||||||++|...+..+++.+|++++|+|+++
T Consensus        97 d~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~------~~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~d  170 (587)
T TIGR00487        97 DHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENED------GKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADD  170 (587)
T ss_pred             CCCHHHHHHHHHhCCcccccCCceeecceEEEEEECC------CcEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCC
Confidence            6899999987643     4456888887777776641      2389999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.+++.+.+..+...++|+++++||+|+..
T Consensus       171 gv~~qT~e~i~~~~~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       171 GVMPQTIEAISHAKAANVPIIVAINKIDKPE  201 (587)
T ss_pred             CCCHhHHHHHHHHHHcCCCEEEEEECccccc
Confidence            9999999999888888999999999999964

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.

>KOG0464|consensus

Probab=99.66  E-value=5.7e-18  Score=139.56  Aligned_cols=124  Identities=35%  Similarity=0.437  Sum_probs=106.0

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      ++.|.+..|++||||+......+.|+       ++++++||||||.+|.-++...++.-|+++.|+|++.|+..|+...|
T Consensus        75 tvtdfla~erergitiqsaav~fdwk-------g~rinlidtpghvdf~leverclrvldgavav~dasagve~qtltvw  147 (753)
T KOG0464|consen   75 TVTDFLAIERERGITIQSAAVNFDWK-------GHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVW  147 (753)
T ss_pred             hHHHHHHHHHhcCceeeeeeeecccc-------cceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeee
Confidence            56788999999999999999999999       89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHH--HHHHHHHhhhhhhch
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLS--QLLEQVNAVMGELFA  137 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~  137 (161)
                      ++..+.++|.++++||||...+++........+++.  .+.-++|+.....|+
T Consensus       148 rqadk~~ip~~~finkmdk~~anfe~avdsi~ekl~ak~l~l~lpi~eak~fn  200 (753)
T KOG0464|consen  148 RQADKFKIPAHCFINKMDKLAANFENAVDSIEEKLGAKALKLQLPIGEAKGFN  200 (753)
T ss_pred             hhccccCCchhhhhhhhhhhhhhhhhHHHHHHHHhCCceEEEEeccccccccc
Confidence            999999999999999999987765433333333333  334456776666665

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=2.3e-15  Score=119.28  Aligned_cols=97  Identities=31%  Similarity=0.433  Sum_probs=86.8

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      ++++|..++|+++++|+......+.|.       ++++++|||||+.+|...+..+++.+|++++|+|++.+...++..+
T Consensus        36 ~~~~d~~~~e~~r~~ti~~~~~~~~~~-------~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~  108 (268)
T cd04170          36 TTVSDYDPEEIKRKMSISTSVAPLEWK-------GHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKL  108 (268)
T ss_pred             cccCCCCHHHHhhcccccceeEEEEEC-------CEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHH
Confidence            455677888999999999888888887       7899999999999999999999999999999999999988888888


Q ss_pred             HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++.+...++|.++|+||+|+...+
T Consensus       109 ~~~~~~~~~p~iivvNK~D~~~~~  132 (268)
T cd04170         109 WEFADEAGIPRIIFINKMDRERAD  132 (268)
T ss_pred             HHHHHHcCCCEEEEEECCccCCCC
Confidence            888888899999999999987643

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

>PRK13351 elongation factor G; Reviewed

Probab=99.66  E-value=1.7e-15  Score=134.04  Aligned_cols=97  Identities=39%  Similarity=0.616  Sum_probs=88.7

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      ++++|..+.|+++|+|+.....++.|.       +++++||||||+.+|...+..+++.+|++++|+|++.+...++..+
T Consensus        45 ~~~~d~~~~e~~r~~ti~~~~~~~~~~-------~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~  117 (687)
T PRK13351         45 TTVTDWMPQEQERGITIESAATSCDWD-------NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETV  117 (687)
T ss_pred             cccCCCCHHHHhcCCCcccceEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHH
Confidence            355677888999999999999999987       7899999999999999999999999999999999999999889999


Q ss_pred             HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      |+.+...++|+++|+||+|+...+
T Consensus       118 ~~~~~~~~~p~iiviNK~D~~~~~  141 (687)
T PRK13351        118 WRQADRYGIPRLIFINKMDRVGAD  141 (687)
T ss_pred             HHHHHhcCCCEEEEEECCCCCCCC
Confidence            988888899999999999998654

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.66  E-value=9.7e-16  Score=134.49  Aligned_cols=95  Identities=27%  Similarity=0.344  Sum_probs=84.1

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      +|++|.+++|+++|+|++.....+.+.       +.+++|||||||++|...+..++..+|++++|+|+..|+..++.++
T Consensus        76 ~~~~d~~~~E~~rg~Tid~~~~~~~~~-------~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~  148 (632)
T PRK05506         76 ALLVDGLAAEREQGITIDVAYRYFATP-------KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRH  148 (632)
T ss_pred             eeeccCCHHHHhCCcCceeeeeEEccC-------CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHH
Confidence            368899999999999999887777766       7799999999999999999999999999999999999998888888


Q ss_pred             HHHHHHcCC-CcEEEEECCcchh
Q psy2609          86 LKQAWLEKI-QPILVLNKIDRLI  107 (161)
Q Consensus        86 ~~~~~~~~~-p~ilv~NK~Dl~~  107 (161)
                      +..+...++ |+|+|+||+|+..
T Consensus       149 ~~~~~~~~~~~iivvvNK~D~~~  171 (632)
T PRK05506        149 SFIASLLGIRHVVLAVNKMDLVD  171 (632)
T ss_pred             HHHHHHhCCCeEEEEEEeccccc
Confidence            887777775 4678999999974

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.65  E-value=1.8e-15  Score=112.11  Aligned_cols=87  Identities=44%  Similarity=0.660  Sum_probs=73.3

Q ss_pred             hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC
Q psy2609          14 DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK   93 (161)
Q Consensus        14 ~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~   93 (161)
                      .+..+|+++......+.+.       ...+.||||||+.++...+..+++.+|++++|+|+..+........+..+...+
T Consensus        42 ~~~~~~~~~~~~~~~~~~~-------~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~  114 (189)
T cd00881          42 EERERGITIKSGVATFEWP-------DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGG  114 (189)
T ss_pred             HHHHcCCCeecceEEEeeC-------CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCC
Confidence            4566777777655555554       678999999999999999999999999999999999887777777777777789


Q ss_pred             CCcEEEEECCcchh
Q psy2609          94 IQPILVLNKIDRLI  107 (161)
Q Consensus        94 ~p~ilv~NK~Dl~~  107 (161)
                      +|+++|+||+|+..
T Consensus       115 ~~i~iv~nK~D~~~  128 (189)
T cd00881         115 LPIIVAINKIDRVG  128 (189)
T ss_pred             CCeEEEEECCCCcc
Confidence            99999999999975

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.64  E-value=1e-15  Score=118.72  Aligned_cols=102  Identities=25%  Similarity=0.237  Sum_probs=83.0

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCC-----------------CCCCceeEEEEeCCCchhhHHHHHHHHH--hcCEE
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNK-----------------DTPEEYLINLIDSPGHVDFSSEVSTAVR--LCDGT   68 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~-----------------~~~~~~~i~iiDTpG~~~~~~~~~~~l~--~~d~~   68 (161)
                      .++++++|.++|+|.......+.+....                 ....++.++|+|||||++|.+.+..++.  .+|++
T Consensus        34 ~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~  113 (224)
T cd04165          34 NLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICEKSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYA  113 (224)
T ss_pred             ehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeeeeCCcEEEEEECCCcHHHHHHHHHhhcccCCCEE
Confidence            4688899999999986655444333211                 0122568999999999999999888886  68999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|+..++..++..++.++...++|+++|+||+|+...+
T Consensus       114 llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~  154 (224)
T cd04165         114 MLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDLAPAN  154 (224)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccccCHH
Confidence            99999999999999999999999999999999999986543

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

>PRK12740 elongation factor G; Reviewed

Probab=99.63  E-value=4.6e-15  Score=130.95  Aligned_cols=97  Identities=40%  Similarity=0.604  Sum_probs=89.0

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|.++.|+++|+|+......+.|.       ++++++|||||+.+|...+..+++.+|++++|+|++.+...++..+
T Consensus        32 ~~~~d~~~~e~~rgiTi~~~~~~~~~~-------~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~  104 (668)
T PRK12740         32 TTTMDFMPEERERGISITSAATTCEWK-------GHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETV  104 (668)
T ss_pred             cccCCCChHHHhcCCCeeeceEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHH
Confidence            477889999999999999999999987       7899999999999999999999999999999999999988888888


Q ss_pred             HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +..+...++|+++|+||+|+....
T Consensus       105 ~~~~~~~~~p~iiv~NK~D~~~~~  128 (668)
T PRK12740        105 WRQAEKYGVPRIIFVNKMDRAGAD  128 (668)
T ss_pred             HHHHHHcCCCEEEEEECCCCCCCC
Confidence            888888899999999999987543

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.63  E-value=7.6e-16  Score=124.57  Aligned_cols=95  Identities=26%  Similarity=0.377  Sum_probs=84.1

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK   87 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~   87 (161)
                      ++|-+..|+|.||||+..+..|.       +++.+|++.|||||+.|.+.+..+.+.||.+|+++|+..|+..|++.+.-
T Consensus        60 LvDGL~AEREQGITIDVAYRyFs-------T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~  132 (431)
T COG2895          60 LVDGLEAEREQGITIDVAYRYFS-------TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSF  132 (431)
T ss_pred             hhhhhHHHHhcCceEEEEeeecc-------cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHH
Confidence            35899999999999997766554       34889999999999999999999999999999999999999999999988


Q ss_pred             HHHHcCCCcE-EEEECCcchhhh
Q psy2609          88 QAWLEKIQPI-LVLNKIDRLILE  109 (161)
Q Consensus        88 ~~~~~~~p~i-lv~NK~Dl~~~~  109 (161)
                      .+...+++.+ +++|||||++-+
T Consensus       133 I~sLLGIrhvvvAVNKmDLvdy~  155 (431)
T COG2895         133 IASLLGIRHVVVAVNKMDLVDYS  155 (431)
T ss_pred             HHHHhCCcEEEEEEeeecccccC
Confidence            7777888875 789999998644

>KOG0092|consensus

Probab=99.62  E-value=5.1e-16  Score=115.97  Aligned_cols=102  Identities=20%  Similarity=0.124  Sum_probs=72.4

Q ss_pred             Ccccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           1 MLCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         1 ~~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      +++||++++     |.|++-+++.|.-..-...+...     +..+++.||||+|+|+|.+..+.||++|+++|+|||.+
T Consensus        14 ~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~-----~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit   88 (200)
T KOG0092|consen   14 SGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVD-----DNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDIT   88 (200)
T ss_pred             CCCCchhhhhhhhhCccccccccccccEEEEEEEEeC-----CcEEEEEEEEcCCcccccccccceecCCcEEEEEEecc
Confidence            468999885     66666555544443333334444     44789999999999999999999999999999999999


Q ss_pred             CCCChhHHHHH-HHHHHc---CCCcEEEEECCcchh
Q psy2609          76 EGICAQTQVAL-KQAWLE---KIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~~~~~-~~~~~~---~~p~ilv~NK~Dl~~  107 (161)
                      +.-+......| ..+...   ++-+.||+||+||..
T Consensus        89 ~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~  124 (200)
T KOG0092|consen   89 DEESFEKAKNWVKELQRQASPNIVIALVGNKADLLE  124 (200)
T ss_pred             cHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhh
Confidence            76555544433 222222   233457999999976

>KOG0094|consensus

Probab=99.61  E-value=1.9e-16  Score=118.62  Aligned_cols=103  Identities=20%  Similarity=0.196  Sum_probs=77.3

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ..|||.++     |.|..-+...|.++.-..++.+.     +..+.+++|||+|+|+|+..+++|++++.++|+|+|.++
T Consensus        32 sVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~-----d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~  106 (221)
T KOG0094|consen   32 SVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLE-----DRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITD  106 (221)
T ss_pred             ccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEc-----CcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccc
Confidence            35777765     66666666677777666666666     668999999999999999999999999999999999985


Q ss_pred             CCC-hhHHHHHHHHHHc----CCCcEEEEECCcchhhh
Q psy2609          77 GIC-AQTQVALKQAWLE----KIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~-~~~~~~~~~~~~~----~~p~ilv~NK~Dl~~~~  109 (161)
                      --+ .++..++.-+...    ++-++||+||.||..+.
T Consensus       107 ~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkr  144 (221)
T KOG0094|consen  107 RNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKR  144 (221)
T ss_pred             cchHHHHHHHHHHHHhccCCCceEEEEEcccccccchh
Confidence            433 3334444444433    34457899999998653

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=2.8e-15  Score=118.92  Aligned_cols=94  Identities=30%  Similarity=0.462  Sum_probs=83.5

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      .|..|+|++|||||.+.  ++.|.     ..+..+-.+|||||.+|.+++..+..+.|++|+|+++++|+.+|+.+++-+
T Consensus        50 id~aPeEk~rGITInta--hveye-----t~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLl  122 (394)
T COG0050          50 IDNAPEEKARGITINTA--HVEYE-----TANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILL  122 (394)
T ss_pred             hccCchHhhcCceeccc--eeEEe-----cCCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhh
Confidence            58899999999999865  55555     447899999999999999999999999999999999999999999999888


Q ss_pred             HHHcCCCcE-EEEECCcchhhh
Q psy2609          89 AWLEKIQPI-LVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~i-lv~NK~Dl~~~~  109 (161)
                      .+..++|.| +++||+|+++..
T Consensus       123 arqvGvp~ivvflnK~Dmvdd~  144 (394)
T COG0050         123 ARQVGVPYIVVFLNKVDMVDDE  144 (394)
T ss_pred             hhhcCCcEEEEEEecccccCcH
Confidence            888899875 679999998743

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.60  E-value=3e-15  Score=126.36  Aligned_cols=103  Identities=23%  Similarity=0.309  Sum_probs=89.7

Q ss_pred             cccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      -|||+++|....-     ..-|||-....+.+.+..    ++...+.|+|||||+-|..+...+...+|+++||+++++|
T Consensus        16 HGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~----~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDG   91 (509)
T COG0532          16 HGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDV----IKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDG   91 (509)
T ss_pred             CCccchhhhHhcCccccccCCceeeEeeeEEEEecc----CCCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCC
Confidence            3899999887532     244889888888888751    1256899999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          78 ICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.+|+.+.+..++..++|+++++||+|++..+
T Consensus        92 v~pQTiEAI~hak~a~vP~iVAiNKiDk~~~n  123 (509)
T COG0532          92 VMPQTIEAINHAKAAGVPIVVAINKIDKPEAN  123 (509)
T ss_pred             cchhHHHHHHHHHHCCCCEEEEEecccCCCCC
Confidence            99999999999999999999999999998654

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.60  E-value=2.3e-15  Score=125.29  Aligned_cols=132  Identities=23%  Similarity=0.137  Sum_probs=102.6

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh---------hHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD---------FSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~---------~~~~~~~~l~~~d   66 (161)
                      |.||+++++++..++      .+|+|+|..+....|.       ++.+.+|||+|.+.         +..++..++..||
T Consensus        13 NVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~-------~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eAD   85 (444)
T COG1160          13 NVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWL-------GREFILIDTGGLDDGDEDELQELIREQALIAIEEAD   85 (444)
T ss_pred             CCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEc-------CceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCC
Confidence            789999999987654      5799999999999999       66799999999753         4567999999999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchhhhhhhh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDET  144 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  144 (161)
                      ++|||+|+..|+++.++.+.++++..++|+|+|+||+|....+.   ..-.+..| .+.+-+|+++..+-+.+.|.+.
T Consensus        86 vilfvVD~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~~~e~---~~~efysl-G~g~~~~ISA~Hg~Gi~dLld~  159 (444)
T COG1160          86 VILFVVDGREGITPADEEIAKILRRSKKPVILVVNKIDNLKAEE---LAYEFYSL-GFGEPVPISAEHGRGIGDLLDA  159 (444)
T ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCchhhh---hHHHHHhc-CCCCceEeehhhccCHHHHHHH
Confidence            99999999999999999999999988899999999999864331   11111121 2344556666655555555443

>TIGR00436 era GTP-binding protein Era

Probab=99.59  E-value=1.2e-15  Score=121.14  Aligned_cols=135  Identities=19%  Similarity=0.143  Sum_probs=86.6

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |||||++++.+..+.      .++.|..... .+ +.     ....++.||||||+.+        +...+..+++.+|+
T Consensus        10 nvGKSTLln~L~~~~~~~vs~~~~TTr~~i~-~i-~~-----~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDv   82 (270)
T TIGR00436        10 NVGKSTLLNQLHGQKISITSPKAQTTRNRIS-GI-HT-----TGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDL   82 (270)
T ss_pred             CCCHHHHHHHHhCCcEeecCCCCCcccCcEE-EE-EE-----cCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCE
Confidence            799999998886543      3345544221 11 22     2256899999999753        23346778899999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchhhhhhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDET  144 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  144 (161)
                      +++|+|++...... ..++..+...+.|+++|+||+|+............+.....+.+.+|+++..+.+.+.+.+.
T Consensus        83 vl~VvD~~~~~~~~-~~i~~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~  158 (270)
T TIGR00436        83 ILFVVDSDQWNGDG-EFVLTKLQNLKRPVVLTRNKLDNKFKDKLLPLIDKYAILEDFKDIVPISALTGDNTSFLAAF  158 (270)
T ss_pred             EEEEEECCCCCchH-HHHHHHHHhcCCCEEEEEECeeCCCHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHH
Confidence            99999998765543 55566666778999999999999643321111111222112224567777777777666544

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd04120 Rab12 Rab12 subfamily

Probab=99.59  E-value=3.6e-15  Score=113.95  Aligned_cols=101  Identities=21%  Similarity=0.179  Sum_probs=73.3

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++     +.+.++..++++.+.....+.+.     ++.+++.+|||||+++|...+..+++++|++|+|+|+++
T Consensus        10 gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~-----~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd   84 (202)
T cd04120          10 GVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELR-----GKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITK   84 (202)
T ss_pred             CCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEEC-----CEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcC
Confidence            57999886     44444445555555444445554     457899999999999999999999999999999999997


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+......| ..+.   ..++|+++|+||+|+..
T Consensus        85 ~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~  119 (202)
T cd04120          85 KETFDDLPKWMKMIDKYASEDAELLLVGNKLDCET  119 (202)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence            5544443222 2222   24689999999999964

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

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.59  E-value=8.8e-15  Score=122.65  Aligned_cols=107  Identities=24%  Similarity=0.282  Sum_probs=82.3

Q ss_pred             ccccccc--------cCCchhHHHcCCccccceEEEEeecC-------CCC------------CCceeEEEEeCCCchhh
Q psy2609           2 LCMVSSY--------MDSRKDEQERGITMKSSSISLYYKDN-------KDT------------PEEYLINLIDSPGHVDF   54 (161)
Q Consensus         2 ~~g~~~~--------~D~~~~E~~~giti~~~~~~~~~~~~-------~~~------------~~~~~i~iiDTpG~~~~   54 (161)
                      .+|||++        +|+.++|+++|+|++.....+.+..+       .+.            ...++++|||||||++|
T Consensus        19 d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f   98 (411)
T PRK04000         19 DHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRRVSFVDAPGHETL   98 (411)
T ss_pred             CCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccEEEEEECCCHHHH
Confidence            3567665        46778999999999877655444210       000            11368999999999999


Q ss_pred             HHHHHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCC-CcEEEEECCcchhh
Q psy2609          55 SSEVSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKI-QPILVLNKIDRLIL  108 (161)
Q Consensus        55 ~~~~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~  108 (161)
                      ...+..+...+|++++|+|++++. ..++..++..+...++ |+++|+||+|+...
T Consensus        99 ~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~  154 (411)
T PRK04000         99 MATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSK  154 (411)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccc
Confidence            999999999999999999999887 6777777777766666 57899999999754

>KOG0458|consensus

Probab=99.59  E-value=6.3e-15  Score=125.19  Aligned_cols=112  Identities=29%  Similarity=0.384  Sum_probs=91.2

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------C
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------I   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~   78 (161)
                      +|++|...+||+||+|++.....|.-       ..+.++++|+|||.+|...+..+...||++++|+|++.+       +
T Consensus       227 awiLDeT~eERerGvTm~v~~~~fes-------~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~  299 (603)
T KOG0458|consen  227 AWILDETKEERERGVTMDVKTTWFES-------KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDP  299 (603)
T ss_pred             eEEeccchhhhhcceeEEeeeEEEec-------CceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCC
Confidence            57899999999999999987776653       388999999999999999999999999999999999844       3


Q ss_pred             ChhHHHHHHHHHHcCCCc-EEEEECCcchhhhhcCChHHHHHhHHHHH
Q psy2609          79 CAQTQVALKQAWLEKIQP-ILVLNKIDRLILEMKLSPLDIYVHLSQLL  125 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~  125 (161)
                      ..|+.++...++..++.- |+++||||+...... ...++...+..++
T Consensus       300 ~gQtrEha~llr~Lgi~qlivaiNKmD~V~Wsq~-RF~eIk~~l~~fL  346 (603)
T KOG0458|consen  300 GGQTREHALLLRSLGISQLIVAINKMDLVSWSQD-RFEEIKNKLSSFL  346 (603)
T ss_pred             CCchHHHHHHHHHcCcceEEEEeecccccCccHH-HHHHHHHHHHHHH
Confidence            578899988888888775 678999999875421 1234444555555

>cd01864 Rab19 Rab19 subfamily

Probab=99.58  E-value=1.5e-15  Score=111.24  Aligned_cols=102  Identities=15%  Similarity=0.129  Sum_probs=71.9

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     ..+..+.++.+.....+.+.     +..+++.+|||||+++|...+..+++.+|++++|+|+++
T Consensus        13 ~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~   87 (165)
T cd01864          13 NVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIE-----GKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITR   87 (165)
T ss_pred             CCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEEC-----CEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcC
Confidence            68999997544     33444444444433445454     445789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+.   ..++|+++|+||+|+...
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  123 (165)
T cd01864          88 RSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQ  123 (165)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence            54433322 222222   247899999999999754

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.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.57  E-value=1.5e-14  Score=105.53  Aligned_cols=102  Identities=27%  Similarity=0.312  Sum_probs=78.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+++|.......+.+..    .....+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        10 ~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~----~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~   85 (168)
T cd01887          10 DHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEV----LKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADD   85 (168)
T ss_pred             CCCHHHHHHHHHhcccccccCCCeEEeeccEEEeccc----CCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCC
Confidence            689999987765433     22445444333333320    136789999999999999888899999999999999998


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +...+....+..+...++|+++|+||+|+..
T Consensus        86 ~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          86 GVMPQTIEAIKLAKAANVPFIVALNKIDKPN  116 (168)
T ss_pred             CccHHHHHHHHHHHHcCCCEEEEEEceeccc
Confidence            7777777777777778999999999999864

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.56  E-value=1.3e-14  Score=104.35  Aligned_cols=101  Identities=23%  Similarity=0.184  Sum_probs=76.1

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH--------HHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS--------EVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~--------~~~~~l~~~d~   67 (161)
                      ++|||++++.+...      ..+++|.+.......+.       ++.+.+|||||+..+..        .+..+++.+|+
T Consensus         7 ~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~   79 (157)
T cd01894           7 NVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWG-------GREFILIDTGGIEPDDEGISKEIREQAELAIEEADV   79 (157)
T ss_pred             CCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEEC-------CeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCE
Confidence            68999998776432      34455555444444444       57899999999977433        55677889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+|+..+.......+.+++...++|+++|+||+|+....
T Consensus        80 ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~  121 (157)
T cd01894          80 ILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKEE  121 (157)
T ss_pred             EEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCChH
Confidence            999999987776666667777777789999999999997644

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.

>KOG1145|consensus

Probab=99.56  E-value=1.1e-14  Score=123.29  Aligned_cols=110  Identities=24%  Similarity=0.356  Sum_probs=93.7

Q ss_pred             cccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      -|||+++|.+....     --|||.....+.+....      +.+++|+|||||.-|..+...+...+|.+++|+.+.+|
T Consensus       164 HGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~------G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDG  237 (683)
T KOG1145|consen  164 HGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPS------GKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDG  237 (683)
T ss_pred             CChhhHHHHHhhCceehhhcCCccceeceEEEecCC------CCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCC
Confidence            48999999986433     34899888888887652      47999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHH
Q psy2609          78 ICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLS  122 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~  122 (161)
                      +.+|+.+.+..++..++|+|+++||||.+.++    +...+.+|.
T Consensus       238 VmpQT~EaIkhAk~A~VpiVvAinKiDkp~a~----pekv~~eL~  278 (683)
T KOG1145|consen  238 VMPQTLEAIKHAKSANVPIVVAINKIDKPGAN----PEKVKRELL  278 (683)
T ss_pred             ccHhHHHHHHHHHhcCCCEEEEEeccCCCCCC----HHHHHHHHH
Confidence            99999999999999999999999999988665    444444443

>PRK15494 era GTPase Era; Provisional

Probab=99.56  E-value=3.5e-15  Score=122.23  Aligned_cols=99  Identities=20%  Similarity=0.214  Sum_probs=72.8

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+..+.      .++.|++.....+.+.       +.++.||||||+++        +...+..+++.+|+
T Consensus        62 nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~-------~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDv  134 (339)
T PRK15494         62 NSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLK-------DTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADL  134 (339)
T ss_pred             CCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeC-------CeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCE
Confidence            799999998886554      2344544333333333       67999999999843        33345567889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|+..+....+..++..+...+.|.++|+||+|+..
T Consensus       135 il~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~  174 (339)
T PRK15494        135 VLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIES  174 (339)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCcc
Confidence            9999999887766666666666667889999999999864

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.55  E-value=6.4e-15  Score=125.39  Aligned_cols=99  Identities=20%  Similarity=0.224  Sum_probs=81.0

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch--------hhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV--------DFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~--------~~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+..      +..+|+|.+.....+.+.       +.++.+|||||++        .+...+..+++.+|+
T Consensus        48 nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~-------~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~  120 (472)
T PRK03003         48 NVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWN-------GRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADA  120 (472)
T ss_pred             CCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEEC-------CcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCE
Confidence            7999999877653      346788877666666665       5679999999976        355667889999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|+|+|++.+.+.....+...+...++|+++|+||+|+..
T Consensus       121 il~VvD~~~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~  160 (472)
T PRK03003        121 VLFVVDATVGATATDEAVARVLRRSGKPVILAANKVDDER  160 (472)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCc
Confidence            9999999998877777777888888999999999999864

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.55  E-value=1.2e-14  Score=110.84  Aligned_cols=101  Identities=13%  Similarity=0.096  Sum_probs=71.1

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++.++.     .++.+.+..+.....+.+.     ++.+.+.||||||+++|...+..+++++|++|+|+|++.
T Consensus         5 ~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~-----~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~   79 (200)
T smart00176        5 GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-----RGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTA   79 (200)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEEC-----CEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCC
Confidence            579999875543     2333333333322333333     457899999999999999999999999999999999997


Q ss_pred             CCChhHHHHH-HHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+..  .++|++||+||+|+..
T Consensus        80 ~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~  113 (200)
T smart00176       80 RVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKD  113 (200)
T ss_pred             hHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc
Confidence            6544433323 22322  4789999999999853

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

>KOG0078|consensus

Probab=99.55  E-value=1.1e-14  Score=110.23  Aligned_cols=101  Identities=16%  Similarity=0.098  Sum_probs=74.0

Q ss_pred             ccccccccCCchhHHHc-----CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQER-----GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~-----giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+||+-++..+.++.-.     .+.++.....+...     +....+.+|||+|+++|...+.+|++.|+++++|||.+.
T Consensus        22 ~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~-----g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitn   96 (207)
T KOG0078|consen   22 GVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELD-----GKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITN   96 (207)
T ss_pred             CCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeC-----CeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccc
Confidence            47888888777665533     33334333344444     678899999999999999999999999999999999996


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| +.+.   ..++|++||+||+|+..
T Consensus        97 e~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~  131 (207)
T KOG0078|consen   97 EKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEE  131 (207)
T ss_pred             hHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccc
Confidence            5543332222 2222   34899999999999975

>KOG0093|consensus

Probab=99.53  E-value=6.3e-14  Score=101.06  Aligned_cols=101  Identities=18%  Similarity=0.146  Sum_probs=73.9

Q ss_pred             ccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||+.++     |.|..-.-+.+.++.+..++.-.     .+..++++|||+|+|++...+..++++++++|+++|.+..
T Consensus        32 vGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~-----~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNe  106 (193)
T KOG0093|consen   32 VGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRS-----DKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNE  106 (193)
T ss_pred             ccchhhhHHhhccccccceeeeeeeeEEEeEeeec-----ccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCH
Confidence            5777765     45555555555666555544444     5678999999999999999999999999999999999965


Q ss_pred             CChhHHHHHH-HHH---HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQVALK-QAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~~~~~-~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+....+-|. +++   -.+.|+|+|+||||+...
T Consensus       107 eSf~svqdw~tqIktysw~naqvilvgnKCDmd~e  141 (193)
T KOG0093|consen  107 ESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSE  141 (193)
T ss_pred             HHHHHHHHHHHHheeeeccCceEEEEecccCCccc
Confidence            5444433332 222   258999999999999653

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.53  E-value=9.9e-15  Score=106.02  Aligned_cols=104  Identities=17%  Similarity=0.185  Sum_probs=70.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..+++..+.....+.+..   .+...++.+|||||+++|...+..+++.+|++++|+|+++
T Consensus        10 ~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~   86 (162)
T cd04106          10 NVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQ---SDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTD   86 (162)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcC---CCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCC
Confidence            6899999866643     2334443333223333331   1346789999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ..+.  ..++|+++|+||+|+...
T Consensus        87 ~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  121 (162)
T cd04106          87 RESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQ  121 (162)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEEChhcccc
Confidence            4433332222 1122  137999999999999653

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

>KOG0087|consensus

Probab=99.52  E-value=5.4e-15  Score=111.96  Aligned_cols=100  Identities=18%  Similarity=0.125  Sum_probs=77.9

Q ss_pred             ccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||+-++     |.|..|.+..|.+.....++...     ++.++.+||||+|++||+..+..||++|-++++|+|.+..
T Consensus        25 VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd-----~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~   99 (222)
T KOG0087|consen   25 VGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVD-----GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRR   99 (222)
T ss_pred             cchhHHHHHhcccccCcccccceeEEEEeeceeec-----CcEEEEeeecccchhhhccccchhhcccceeEEEEechhH
Confidence            4666554     66777778788777777777666     7789999999999999999999999999999999999865


Q ss_pred             CChhH-HHHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      .+.+. ..+++.++.   .+++++||+||+||..
T Consensus       100 ~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~  133 (222)
T KOG0087|consen  100 QTFENVERWLKELRDHADSNIVIMLVGNKSDLNH  133 (222)
T ss_pred             HHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhh
Confidence            44333 223333332   4788999999999965

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.52  E-value=3.6e-14  Score=118.95  Aligned_cols=101  Identities=22%  Similarity=0.177  Sum_probs=85.4

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc--------hhhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH--------VDFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~--------~~~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+...      ..+|+|.+.....+.|.       +..+.+|||||+        +.+...+..+++.+|+
T Consensus         9 nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~-------~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~   81 (429)
T TIGR03594         9 NVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWG-------GREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADV   81 (429)
T ss_pred             CCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEEC-------CeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCE
Confidence            78999998877543      34688888877777776       668999999997        5567778899999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+|+..+....+..+.+++...++|+++|+||+|+...+
T Consensus        82 vl~vvD~~~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~~  123 (429)
T TIGR03594        82 ILFVVDGREGLTPEDEEIAKWLRKSGKPVILVANKIDGKKED  123 (429)
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHhCCCEEEEEECccCCccc
Confidence            999999999998888888888888899999999999987543

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.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.52  E-value=1e-14  Score=105.30  Aligned_cols=98  Identities=16%  Similarity=0.098  Sum_probs=71.3

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH------HHHHHHH--hcCEE
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS------EVSTAVR--LCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~------~~~~~l~--~~d~~   68 (161)
                      ++|||++++.+...     ..+|+|++.....+.+.       +..+.+|||||++++..      ....++.  .+|++
T Consensus         6 ~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           6 NVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLG-------GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCHHHHHHHHhcCcccccCCCCcccccceEEEeeC-------CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            68999998666443     34677777766666665       46899999999977653      3455564  89999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|+....  .....+..+...++|+++|+||+|+...
T Consensus        79 i~v~d~~~~~--~~~~~~~~~~~~~~~~iiv~NK~Dl~~~  116 (158)
T cd01879          79 VNVVDATNLE--RNLYLTLQLLELGLPVVVALNMIDEAEK  116 (158)
T ss_pred             EEEeeCCcch--hHHHHHHHHHHcCCCEEEEEehhhhccc
Confidence            9999998532  2233444555678999999999999754

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.51  E-value=1.5e-14  Score=109.70  Aligned_cols=102  Identities=18%  Similarity=0.086  Sum_probs=69.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+.+..+.....+.+.    .+..+.+.+|||||+++|...+..+++.+|++|+|+|.++
T Consensus        10 ~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~----~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~   85 (201)
T cd04107          10 GVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWD----PNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTR   85 (201)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEEC----CCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCC
Confidence            58999998665432     23333333222223332    1347889999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH-------HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW-------LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~-------~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+.       ..++|+++|+||+|+..
T Consensus        86 ~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~  124 (201)
T cd04107          86 PSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKK  124 (201)
T ss_pred             HHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCccc
Confidence            4433332222 1111       24689999999999963

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.

>KOG0080|consensus

Probab=99.51  E-value=8.3e-15  Score=106.98  Aligned_cols=100  Identities=19%  Similarity=0.132  Sum_probs=75.6

Q ss_pred             ccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||+.++     |.+..+....|.++.....+...     ++.+++.||||+|+|+|+.++++||++|.++|+|+|.+..
T Consensus        22 VGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vd-----g~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~R   96 (209)
T KOG0080|consen   22 VGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVD-----GKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSR   96 (209)
T ss_pred             ccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEc-----CceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccch
Confidence            3565553     66777777777777777777777     7799999999999999999999999999999999999854


Q ss_pred             CChhHHHHHH-----HHHHcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQVALK-----QAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~~~~-----~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      -+.....+|-     +....++-.++|+||+|..+
T Consensus        97 dtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes  131 (209)
T KOG0080|consen   97 DTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKES  131 (209)
T ss_pred             hhHHhHHHHHHHHHhhcCCccHhHhhhcccccchh
Confidence            4333333331     22234566789999999763

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.51  E-value=7.6e-14  Score=121.38  Aligned_cols=106  Identities=26%  Similarity=0.276  Sum_probs=80.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCC-----------CCCceeEEEEeCCCchhhHHHHHHHHHhc
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKD-----------TPEEYLINLIDSPGHVDFSSEVSTAVRLC   65 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~-----------~~~~~~i~iiDTpG~~~~~~~~~~~l~~~   65 (161)
                      ++|||+++|.+....     ..|+|.......+.+.....           ..+..++.|||||||++|...+..+++.+
T Consensus        14 d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l~~~~~~~a   93 (590)
T TIGR00491        14 DHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNLRKRGGALA   93 (590)
T ss_pred             CCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHHHHHHHhhC
Confidence            789999998875432     23466544444443321100           00112489999999999999999999999


Q ss_pred             CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          66 DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |++++|+|+++++..++.+.+..+...++|+++|+||+|+..
T Consensus        94 D~~IlVvD~~~g~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        94 DLAILIVDINEGFKPQTQEALNILRMYKTPFVVAANKIDRIP  135 (590)
T ss_pred             CEEEEEEECCcCCCHhHHHHHHHHHHcCCCEEEEEECCCccc
Confidence            999999999999999999888888888999999999999963

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.51  E-value=1.3e-14  Score=106.56  Aligned_cols=100  Identities=17%  Similarity=0.025  Sum_probs=68.0

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..+     ..+.++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++++|+|.++
T Consensus        15 ~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   89 (170)
T cd04116          15 GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-----GHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDD   89 (170)
T ss_pred             CCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEEC-----CeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCC
Confidence            68999987655432     22222222222233343     557889999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-----HHHH---HcCCCcEEEEECCcch
Q psy2609          77 GICAQTQVAL-----KQAW---LEKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~~~~~-----~~~~---~~~~p~ilv~NK~Dl~  106 (161)
                      ..+......|     ....   ..++|+++|+||+|+.
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  127 (170)
T cd04116          90 SQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP  127 (170)
T ss_pred             HHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc
Confidence            5433222222     1111   1468999999999986

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

>KOG0079|consensus

Probab=99.51  E-value=3.8e-14  Score=102.32  Aligned_cols=102  Identities=21%  Similarity=0.174  Sum_probs=78.8

Q ss_pred             ccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||+.++     |.|...+-..+.++....++...     |..+++.||||+|+|+|...+..++++..++++|+|.+.+
T Consensus        19 VGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~-----G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~   93 (198)
T KOG0079|consen   19 VGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDIN-----GDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNG   93 (198)
T ss_pred             ccHHHHHHHHhhcccccceEEEeeeeEEEEEeecC-----CcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcch
Confidence            3566554     66677777777777777777777     7799999999999999999999999999999999999977


Q ss_pred             CChhHHH-HHHHHHH--cCCCcEEEEECCcchhhh
Q psy2609          78 ICAQTQV-ALKQAWL--EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        78 ~~~~~~~-~~~~~~~--~~~p~ilv~NK~Dl~~~~  109 (161)
                      -+..... +++.+..  ..+|.++|+||.|.+...
T Consensus        94 ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~~Rr  128 (198)
T KOG0079|consen   94 ESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDPERR  128 (198)
T ss_pred             hhhHhHHHHHHHHHhcCccccceecccCCCCccce
Confidence            6544432 2233322  367889999999997643

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.50  E-value=1.2e-13  Score=105.53  Aligned_cols=106  Identities=16%  Similarity=0.155  Sum_probs=71.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++..+     .++..+.+..+.....+.+...+..++.+.+.||||+|+++|......+++.+|++|+|+|.++
T Consensus        10 gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn   89 (202)
T cd04102          10 GVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTN   89 (202)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcC
Confidence            47888887543     3333344433332233444322223457899999999999999999999999999999999987


Q ss_pred             CCChhHHHHH-HHHHH----------------------cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAWL----------------------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~----------------------~~~p~ilv~NK~Dl~~  107 (161)
                      .-+......| ..+..                      .++|+|||+||+|+..
T Consensus        90 ~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~  143 (202)
T cd04102          90 RKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP  143 (202)
T ss_pred             hHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence            6544333222 22211                      3689999999999964

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.50  E-value=3.7e-14  Score=103.62  Aligned_cols=100  Identities=16%  Similarity=0.125  Sum_probs=69.4

Q ss_pred             ccccccccCCchhHH---------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMDSRKDEQ---------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~---------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVv   72 (161)
                      ++|||++++.+....         +...|+......+.+.       ..++.+|||||++++...+..+++.+|++++|+
T Consensus         9 ~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vv   81 (167)
T cd04160           9 NAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVG-------NARLKFWDLGGQESLRSLWDKYYAECHAIIYVI   81 (167)
T ss_pred             CCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEEC-------CEEEEEEECCCChhhHHHHHHHhCCCCEEEEEE
Confidence            689999987764322         1233344344444444       689999999999999999999999999999999


Q ss_pred             eCCCCCChhH-HHHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          73 DCVEGICAQT-QVALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        73 d~~~~~~~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      |+++.-.... ...+..+.    ..++|+++++||+|+...
T Consensus        82 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~  122 (167)
T cd04160          82 DSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA  122 (167)
T ss_pred             ECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC
Confidence            9975322111 11222221    247999999999998653

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.50  E-value=3e-14  Score=119.76  Aligned_cols=99  Identities=24%  Similarity=0.209  Sum_probs=79.1

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh----------hH-HHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD----------FS-SEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~----------~~-~~~~~~l~~   64 (161)
                      |+|||++++.+..+      ..+|.|++.....+.+.       +..+.+|||||+.+          |. ..+..+++.
T Consensus       183 n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~-------~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~  255 (435)
T PRK00093        183 NVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERD-------GQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIER  255 (435)
T ss_pred             CCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEEC-------CeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHH
Confidence            79999999776533      35688877665555555       56889999999643          21 234568899


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|++|+|+|++.+...++..++..+...++|+++|+||+|+..
T Consensus       256 ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~  298 (435)
T PRK00093        256 ADVVLLVIDATEGITEQDLRIAGLALEAGRALVIVVNKWDLVD  298 (435)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEEEEEECccCCC
Confidence            9999999999999999999888888888999999999999974

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.50  E-value=2.2e-14  Score=104.29  Aligned_cols=101  Identities=17%  Similarity=0.108  Sum_probs=67.4

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     .+..+.+. ......+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        12 ~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (164)
T cd04145          12 GVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEID-----GQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTD   85 (164)
T ss_pred             CCcHHHHHHHHHhCCCCcccCCCcc-ceEEEEEEEC-----CEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCC
Confidence            689999876543     22222222 1111222333     446789999999999999999999999999999999986


Q ss_pred             CCChhHHH-----HHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-----ALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-----~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.....     +.+.....++|+++|+||+|+...
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~  122 (164)
T cd04145          86 RGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQ  122 (164)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccccc
Confidence            44322221     111112247899999999999653

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.50  E-value=6.8e-14  Score=105.84  Aligned_cols=101  Identities=15%  Similarity=0.135  Sum_probs=72.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..+.     ++..+.++.+.....+.+.     +..+.+.+|||||+++|...+..+++.+|++|+|+|.++
T Consensus        16 ~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~-----~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~   90 (189)
T cd04121          16 DVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLD-----GRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITN   90 (189)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            578999875443     3444445554433444444     457899999999999999999999999999999999986


Q ss_pred             CCChhHHHH-HHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVA-LKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~-~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+...... +..+..  .++|+|||+||+|+..
T Consensus        91 ~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~  124 (189)
T cd04121          91 RWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAF  124 (189)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECccchh
Confidence            554333322 222222  4789999999999964

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.50  E-value=1.6e-14  Score=121.16  Aligned_cols=98  Identities=22%  Similarity=0.172  Sum_probs=78.7

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-----------HHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-----------SEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-----------~~~~~~l~~   64 (161)
                      ++|||++++.+-.+      ..+|.|++.....+.+.       +..+.+|||||+.++.           ..+..+++.
T Consensus       182 ~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~-------~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~  254 (429)
T TIGR03594       182 NVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERN-------GKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIER  254 (429)
T ss_pred             CCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEEC-------CcEEEEEECCCccccccchhhHHHHHHHHHHHHHHh
Confidence            78999998776433      35678877666666655       4589999999975432           124567899


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      +|++|+|+|++++.+.++..++..+...++|+++|+||+|+.
T Consensus       255 ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~  296 (429)
T TIGR03594       255 ADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDLV  296 (429)
T ss_pred             CCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECcccC
Confidence            999999999999999999888888888899999999999997

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.50  E-value=6.2e-14  Score=102.58  Aligned_cols=100  Identities=17%  Similarity=0.152  Sum_probs=67.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+..............     +..+.+.+|||||+++|...+..+++.+|++++|+|+++
T Consensus        10 ~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (161)
T cd04124          10 AVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFE-----GKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTR   84 (161)
T ss_pred             CCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEEC-----CEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCC
Confidence            58999998665322     21111111111112222     457889999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH--cCCCcEEEEECCcch
Q psy2609          77 GICAQTQV-ALKQAWL--EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~--~~~p~ilv~NK~Dl~  106 (161)
                      ..+..... ++..+..  .++|+++|+||+|+.
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~  117 (161)
T cd04124          85 KITYKNLSKWYEELREYRPEIPCIVVANKIDLD  117 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCcEEEEEECccCc
Confidence            55433322 2233333  378999999999985

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.50  E-value=4e-14  Score=103.15  Aligned_cols=100  Identities=20%  Similarity=0.152  Sum_probs=66.9

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++     +.+.++..+.+. +.....+...     +....+.||||||+++|...+..+++.+|++++|+|.++
T Consensus        11 ~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~   84 (163)
T cd04176          11 GVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVD-----SSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVN   84 (163)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEEC-----CEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCC
Confidence            68999987     444333332221 1111223333     446789999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... .++..+.    ..++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~  120 (163)
T cd04176          85 QQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLES  120 (163)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchh
Confidence            4332222 2222222    14799999999999864

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.49  E-value=7.4e-14  Score=102.79  Aligned_cols=98  Identities=16%  Similarity=0.148  Sum_probs=67.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..+     ..+.+.  .....+.       .+.+++.+|||||+++|...+..+++.+|++++|+|+++
T Consensus         9 ~vGKTsli~~~~~~~~~~~~~pt~g--~~~~~i~-------~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~   79 (164)
T cd04162           9 GAGKTSLLHSLSSERSLESVVPTTG--FNSVAIP-------TQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSAD   79 (164)
T ss_pred             CCCHHHHHHHHhcCCCcccccccCC--cceEEEe-------eCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCC
Confidence            68999987655433     223332  2222232       337899999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ...+..+.  ..++|+++|+||+|+...
T Consensus        80 ~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~  114 (164)
T cd04162          80 SERLPLARQELHQLLQHPPDLPLVVLANKQDLPAA  114 (164)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCC
Confidence            432222 11222222  257999999999998643

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.49  E-value=4.1e-14  Score=103.48  Aligned_cols=102  Identities=20%  Similarity=0.112  Sum_probs=69.9

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..++++.+.....+.+.     +..+++.+|||||++++......+++.+|++++|+|+++
T Consensus        12 ~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~   86 (166)
T cd01869          12 GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD-----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTD   86 (166)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcC
Confidence            6899999866532     223344433333334443     446789999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+..   .++|+++|+||+|+...
T Consensus        87 ~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~  122 (166)
T cd01869          87 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDK  122 (166)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccc
Confidence            4322221 12222222   46899999999998653

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.49  E-value=8.8e-14  Score=103.41  Aligned_cols=84  Identities=20%  Similarity=0.191  Sum_probs=69.6

Q ss_pred             CccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC-CCcEE
Q psy2609          20 ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK-IQPIL   98 (161)
Q Consensus        20 iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~-~p~il   98 (161)
                      .|+.....+..+.      +++.+.++|||||+||.-++..+.+++.++|+++|++.+.....+.++......+ +|+++
T Consensus        53 tTva~D~g~~~~~------~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vV  126 (187)
T COG2229          53 TTVAMDFGSIELD------EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVV  126 (187)
T ss_pred             eeEeecccceEEc------CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccCCCEEE
Confidence            5555555555544      2478999999999999999999999999999999999888776677777777776 99999


Q ss_pred             EEECCcchhhh
Q psy2609          99 VLNKIDRLILE  109 (161)
Q Consensus        99 v~NK~Dl~~~~  109 (161)
                      ++||.|+....
T Consensus       127 a~NK~DL~~a~  137 (187)
T COG2229         127 AINKQDLFDAL  137 (187)
T ss_pred             EeeccccCCCC
Confidence            99999998764

>cd01861 Rab6 Rab6 subfamily

Probab=99.49  E-value=4e-14  Score=102.71  Aligned_cols=101  Identities=17%  Similarity=0.145  Sum_probs=71.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++.+.+.....+.+.     +...++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        10 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~   84 (161)
T cd01861          10 SVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLE-----DKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITN   84 (161)
T ss_pred             CCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcC
Confidence            689999975543     3344555555444445444     446789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHH-HHc--CCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQA-WLE--KIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~-~~~--~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++... ...  ++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~  119 (161)
T cd01861          85 RQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSD  119 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccc
Confidence            54333322 22222 222  489999999999953

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.49  E-value=7.7e-14  Score=102.27  Aligned_cols=102  Identities=14%  Similarity=0.094  Sum_probs=68.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..+.+..+.....+...     +..+++.+|||||+++|...+..+++.+|++|+|+|+++
T Consensus        12 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (166)
T cd04122          12 GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVN-----GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   86 (166)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            6899999865532     222222222222223333     457889999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ....   ..+.|+++|+||+|+...
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~  122 (166)
T cd04122          87 RSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ  122 (166)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccc
Confidence            4433332222 2221   246789999999999653

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

>KOG0460|consensus

Probab=99.49  E-value=1.9e-13  Score=110.35  Aligned_cols=94  Identities=29%  Similarity=0.433  Sum_probs=84.0

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|+-|+|+.|||||.+  .+++|.     .....+--+|||||.+|.+.+..+...-|++|+|+.+++|+.+|+++++-+
T Consensus        92 ID~APEEkaRGITIn~--aHveYe-----Ta~RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLL  164 (449)
T KOG0460|consen   92 IDKAPEEKARGITINA--AHVEYE-----TAKRHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLLL  164 (449)
T ss_pred             hhcChhhhhccceEee--eeeeee-----ccccccccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHHH
Confidence            5889999999999875  567777     447889999999999999999999999999999999999999999999988


Q ss_pred             HHHcCCCcE-EEEECCcchhhh
Q psy2609          89 AWLEKIQPI-LVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~i-lv~NK~Dl~~~~  109 (161)
                      .+..+++.| +++||.|++...
T Consensus       165 ArQVGV~~ivvfiNKvD~V~d~  186 (449)
T KOG0460|consen  165 ARQVGVKHIVVFINKVDLVDDP  186 (449)
T ss_pred             HHHcCCceEEEEEecccccCCH
Confidence            888899975 679999998443

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.49  E-value=1.1e-13  Score=116.45  Aligned_cols=99  Identities=20%  Similarity=0.153  Sum_probs=81.3

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+...      ..+|+|.+.....+.+.       +..+.+|||||+++        +...+..+++.+|+
T Consensus        11 ~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~-------~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~   83 (435)
T PRK00093         11 NVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWL-------GREFILIDTGGIEPDDDGFEKQIREQAELAIEEADV   83 (435)
T ss_pred             CCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEEC-------CcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCE
Confidence            78999998777533      24678877776677776       57899999999987        45557788999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|+..+....+..+..++...++|+++|+||+|+..
T Consensus        84 il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~  123 (435)
T PRK00093         84 ILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPD  123 (435)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCcc
Confidence            9999999988888777777888888999999999999754

>cd04113 Rab4 Rab4 subfamily

Probab=99.49  E-value=3.3e-14  Score=103.41  Aligned_cols=101  Identities=19%  Similarity=0.132  Sum_probs=70.6

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     .+..+.++.......+...     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        10 ~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (161)
T cd04113          10 GTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVG-----GKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITN   84 (161)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEEC-----CEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCC
Confidence            689999987663     2333333333322333333     446789999999999999999999999999999999987


Q ss_pred             CCChhHHHHH-HHH---HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQA---WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~---~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ...   ...++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~  119 (161)
T cd04113          85 RTSFEALPTWLSDARALASPNIVVILVGNKSDLAD  119 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcch
Confidence            5443332222 222   235789999999999965

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.48  E-value=3.3e-14  Score=113.76  Aligned_cols=98  Identities=23%  Similarity=0.237  Sum_probs=71.0

Q ss_pred             ccccccccCCchhHHHc------CCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQER------GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~------giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |||||++++.+..+.-.      +.|...  ..-.+.     .++.++.||||||+.+        +...+..++..+|+
T Consensus        15 n~GKSTLin~L~g~~~~~vs~~~~tt~~~--i~~i~~-----~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~   87 (292)
T PRK00089         15 NVGKSTLLNALVGQKISIVSPKPQTTRHR--IRGIVT-----EDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDL   87 (292)
T ss_pred             CCCHHHHHHHHhCCceeecCCCCCccccc--EEEEEE-----cCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCE
Confidence            79999999887655422      222221  111122     2357999999999744        34456678889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      +++|+|++.+.......++..+...++|+++|+||+|+.
T Consensus        88 il~vvd~~~~~~~~~~~i~~~l~~~~~pvilVlNKiDl~  126 (292)
T PRK00089         88 VLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLV  126 (292)
T ss_pred             EEEEEeCCCCCChhHHHHHHHHhhcCCCEEEEEECCcCC
Confidence            999999998776666777777766689999999999997

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.48  E-value=1.1e-13  Score=117.82  Aligned_cols=99  Identities=19%  Similarity=0.190  Sum_probs=77.9

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch----------hhHHH-HHHHHHh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV----------DFSSE-VSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~----------~~~~~-~~~~l~~   64 (161)
                      |+|||++++.+..+      ..+|+|++.....+.+.       +..+.||||||+.          .|... +..+++.
T Consensus       221 nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~-------~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~  293 (472)
T PRK03003        221 NVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELG-------GKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEA  293 (472)
T ss_pred             CCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEEC-------CEEEEEEECCCccccccccchHHHHHHHHHHHHHhc
Confidence            79999998766543      34688887766666665       5678899999963          23322 3456889


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|++++|+|++++.+.++..++..+...++|+|+|+||+|+..
T Consensus       294 ad~vilV~Da~~~~s~~~~~~~~~~~~~~~piIiV~NK~Dl~~  336 (472)
T PRK03003        294 AEVAVVLIDASEPISEQDQRVLSMVIEAGRALVLAFNKWDLVD  336 (472)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCC
Confidence            9999999999999988888888877778999999999999964

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.48  E-value=9.1e-14  Score=103.13  Aligned_cols=100  Identities=21%  Similarity=0.177  Sum_probs=69.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     +++..+.+.... ...+.+.     +..+.+.+|||||+++|...+..+++.+|++++|+|+++
T Consensus        12 ~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~   85 (172)
T cd04141          12 GVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARID-----NEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTD   85 (172)
T ss_pred             CCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEEC-----CEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCc
Confidence            58999987444     333333332111 1223333     456889999999999999999999999999999999987


Q ss_pred             CCChhHHHHH-HHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+.    ..++|+++|+||+|+..
T Consensus        86 ~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~  121 (172)
T cd04141          86 RHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLES  121 (172)
T ss_pred             hhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhh
Confidence            6554443321 2221    24789999999999864

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

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.48  E-value=3.2e-13  Score=112.01  Aligned_cols=94  Identities=33%  Similarity=0.385  Sum_probs=85.4

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      .|.+++|.++|+|++..+..+...       ++.+.|+|.|||++|...+..++...|++++|+++++|+..|+.+++..
T Consensus        25 ~d~l~EekKRG~TiDlg~~y~~~~-------d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~i   97 (447)
T COG3276          25 TDRLPEEKKRGITIDLGFYYRKLE-------DGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLI   97 (447)
T ss_pred             cccchhhhhcCceEeeeeEeccCC-------CCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHH
Confidence            599999999999999776665554       5699999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCc-EEEEECCcchhhh
Q psy2609          89 AWLEKIQP-ILVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~-ilv~NK~Dl~~~~  109 (161)
                      +...+++. ++|++|+|+....
T Consensus        98 Ldllgi~~giivltk~D~~d~~  119 (447)
T COG3276          98 LDLLGIKNGIIVLTKADRVDEA  119 (447)
T ss_pred             HHhcCCCceEEEEeccccccHH
Confidence            99999998 8999999998643

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.48  E-value=1.9e-14  Score=106.01  Aligned_cols=101  Identities=12%  Similarity=0.081  Sum_probs=68.3

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..+.+..+.....+...     +..+.+.+|||||++++......+++.+|++|+|+|+++
T Consensus        10 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (166)
T cd00877          10 GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTN-----RGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTS   84 (166)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCC
Confidence            5899999866532     222222222222222222     456899999999999998888889999999999999986


Q ss_pred             CCChhHHHHH-HHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.+....| ..+..  .++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~  118 (166)
T cd00877          85 RVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKD  118 (166)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCcEEEEEEchhccc
Confidence            5443332222 22222  2799999999999963

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.48  E-value=1.3e-13  Score=101.25  Aligned_cols=101  Identities=16%  Similarity=0.088  Sum_probs=70.7

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.++.+.....+.+.     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        13 ~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~   87 (167)
T cd01867          13 GVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELD-----GKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   87 (167)
T ss_pred             CCCHHHHHHHHhhCcCCcccccCccceEEEEEEEEC-----CEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcC
Confidence            689998875553     3334444444333344444     446889999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+.   ..++|+++|+||+|+..
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~  122 (167)
T cd01867          88 EKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEE  122 (167)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence            44332222 222222   24689999999999975

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.48  E-value=6e-14  Score=105.59  Aligned_cols=101  Identities=13%  Similarity=0.046  Sum_probs=68.4

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++..+.      .+..+++..+.....+.+.     +..+++.||||||++++......+++.+|++|+|+|++
T Consensus        10 ~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~   84 (191)
T cd04112          10 GVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVD-----GVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDIT   84 (191)
T ss_pred             CCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEEC-----CEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECC
Confidence            689999984432      2233333333222233333     45789999999999999999999999999999999998


Q ss_pred             CCCChhHH-HHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          76 EGICAQTQ-VALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ...+.... .++..+.   ..++|+++|+||+|+..
T Consensus        85 ~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~  120 (191)
T cd04112          85 NKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSG  120 (191)
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchh
Confidence            64332221 1222222   23689999999999964

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.

>cd01868 Rab11_like Rab11-like

Probab=99.48  E-value=2.6e-14  Score=104.35  Aligned_cols=101  Identities=18%  Similarity=0.101  Sum_probs=70.4

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++.     .+..+.++.+.....+...     +..+.+.+|||||++++......+++.++++++|+|+++
T Consensus        13 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   87 (165)
T cd01868          13 GVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQID-----GKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK   87 (165)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEEC-----CEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcC
Confidence            689999986653     2334444444333444444     445789999999999999999999999999999999985


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+..   .++|+++|+||+|+..
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~  122 (165)
T cd01868          88 KQTFENVERWLKELRDHADSNIVIMLVGNKSDLRH  122 (165)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            33322222 2222222   2589999999999864

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.48  E-value=5.4e-14  Score=125.00  Aligned_cols=99  Identities=22%  Similarity=0.256  Sum_probs=82.1

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+..      +..+|+|.+.......|.       +..+.+|||||++.        +...+..+++.+|+
T Consensus       285 nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~-------~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~  357 (712)
T PRK09518        285 NVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWA-------GTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADA  357 (712)
T ss_pred             CCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEEC-------CEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCE
Confidence            7999999987753      335788887666555565       67899999999763        56678889999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|+|+|++.++...+..+...+...++|+++|+||+|+..
T Consensus       358 iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~  397 (712)
T PRK09518        358 VVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKIDDQA  397 (712)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECccccc
Confidence            9999999998888888888888888999999999999864

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.48  E-value=1.7e-13  Score=101.43  Aligned_cols=102  Identities=19%  Similarity=0.111  Sum_probs=69.3

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..     +.++..+.+..+.....+...     +..+++.||||||+++|......+++.+|++++|+|+++
T Consensus        10 ~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~   84 (170)
T cd04108          10 SVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEIL-----GVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTD   84 (170)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcC
Confidence            5899988743     444444555444332334343     446899999999999999999999999999999999985


Q ss_pred             CCChhHH-HHHHHHHHc----CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWLE----KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~~----~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+...    ..|+++|+||+|+...
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~  121 (170)
T cd04108          85 VASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSP  121 (170)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcc
Confidence            3322222 222222222    3568899999998643

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.47  E-value=1.1e-13  Score=102.57  Aligned_cols=106  Identities=15%  Similarity=0.106  Sum_probs=70.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCC-----CCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEE
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKD-----TPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIV   71 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~-----~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilV   71 (161)
                      ++|||+++..+.     .+..++++.+.....+.+....+     .+..+.+.||||||+++|...+..+++.+|++++|
T Consensus        14 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   93 (180)
T cd04127          14 GVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLI   93 (180)
T ss_pred             CCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEE
Confidence            689999985543     33344444333333344432111     13468899999999999999999999999999999


Q ss_pred             EeCCCCCChhHHHH-HHHHHH----cCCCcEEEEECCcchh
Q psy2609          72 VDCVEGICAQTQVA-LKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        72 vd~~~~~~~~~~~~-~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      +|+++..+...... +..+..    .+.|+++|+||+|+..
T Consensus        94 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  134 (180)
T cd04127          94 FDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLED  134 (180)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchh
Confidence            99986433333222 222222    3678999999999965

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.47  E-value=1.9e-13  Score=99.17  Aligned_cols=100  Identities=14%  Similarity=0.075  Sum_probs=67.3

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....    ...-|+......+.+       ..+++.+|||||++++...+..+++.+|++++|+|+++.
T Consensus         9 ~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~~~~-------~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   81 (162)
T cd04157           9 NSGKTTIINQLKPENAQSQIIVPTVGFNVESFEK-------GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDR   81 (162)
T ss_pred             CCCHHHHHHHHcccCCCcceecCccccceEEEEE-------CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcH
Confidence            689999986665431    111222222222222       378999999999999999999999999999999999865


Q ss_pred             CChhH-HHHHHHH------HHcCCCcEEEEECCcchhh
Q psy2609          78 ICAQT-QVALKQA------WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~-~~~~~~~------~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+... ...+..+      ...++|+++|+||+|+...
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          82 LRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             HHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            43211 1111111      1247999999999998653

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

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.46  E-value=2.5e-13  Score=108.99  Aligned_cols=136  Identities=24%  Similarity=0.297  Sum_probs=106.5

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCC-------------------CCCceeEEEEeCCCchhhHHHHHHHHHhcCEEE
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKD-------------------TPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI   69 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~-------------------~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~i   69 (161)
                      +|++.+|-+||+|++..+....+.....                   ..-...+.|+|+|||+-+...+.++....|+++
T Consensus        35 T~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~VSfVDaPGHe~LMATMLsGAAlMDgAl  114 (415)
T COG5257          35 TDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRVSFVDAPGHETLMATMLSGAALMDGAL  114 (415)
T ss_pred             eechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEEEEeeCCchHHHHHHHhcchhhhcceE
Confidence            5899999999999987766443221110                   111257999999999999999999999999999


Q ss_pred             EEEeCCCC-CChhHHHHHHHHHHcCCCc-EEEEECCcchhhhhcCChHHHHHhHHHHHH--------HHHhhhhhhchhh
Q psy2609          70 IVVDCVEG-ICAQTQVALKQAWLEKIQP-ILVLNKIDRLILEMKLSPLDIYVHLSQLLE--------QVNAVMGELFASQ  139 (161)
Q Consensus        70 lVvd~~~~-~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~--------~~~~~~~~~~~~~  139 (161)
                      +|+++++. +++|+.+++-.+.-.++.. |++-||+|+++.+   ...+-|++++.|.+        .+|+++.-..|.|
T Consensus       115 LvIaANEpcPQPQT~EHl~AleIigik~iiIvQNKIDlV~~E---~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NID  191 (415)
T COG5257         115 LVIAANEPCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSRE---RALENYEQIKEFVKGTVAENAPIIPISAQHKANID  191 (415)
T ss_pred             EEEecCCCCCCCchHHHHHHHhhhccceEEEEecccceecHH---HHHHHHHHHHHHhcccccCCCceeeehhhhccCHH
Confidence            99999865 4789999887777666664 6889999999877   46777888888763        4788888889988


Q ss_pred             hhhhhhcc
Q psy2609         140 VMDETAVK  147 (161)
Q Consensus       140 ~~~~~~~~  147 (161)
                      .+.+.-++
T Consensus       192 al~e~i~~  199 (415)
T COG5257         192 ALIEAIEK  199 (415)
T ss_pred             HHHHHHHH
Confidence            88876554

>KOG0098|consensus

Probab=99.46  E-value=9.4e-14  Score=103.59  Aligned_cols=86  Identities=17%  Similarity=0.164  Sum_probs=62.7

Q ss_pred             CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH----HHHHHcCC
Q psy2609          19 GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL----KQAWLEKI   94 (161)
Q Consensus        19 giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~----~~~~~~~~   94 (161)
                      .+.++.....+..+     ++..++++|||+||+.|.+.+.+||+.+.++|||+|.+..-+......|    ++....++
T Consensus        38 TiGvefg~r~~~id-----~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~Nm  112 (216)
T KOG0098|consen   38 TIGVEFGARMVTID-----GKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENM  112 (216)
T ss_pred             eeeeeeceeEEEEc-----CceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCc
Confidence            34444444444444     6789999999999999999999999999999999999854333222221    22223577


Q ss_pred             CcEEEEECCcchhhh
Q psy2609          95 QPILVLNKIDRLILE  109 (161)
Q Consensus        95 p~ilv~NK~Dl~~~~  109 (161)
                      .++|++||+||....
T Consensus       113 vImLiGNKsDL~~rR  127 (216)
T KOG0098|consen  113 VIMLIGNKSDLEARR  127 (216)
T ss_pred             EEEEEcchhhhhccc
Confidence            788999999997643

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.46  E-value=1.2e-13  Score=101.76  Aligned_cols=102  Identities=18%  Similarity=0.103  Sum_probs=70.9

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-HHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-SEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++..+     +.+..+.++.+.....+.+.     +..+.+.+|||||+++|. .....+++.+|++++|+|++
T Consensus        12 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~   86 (170)
T cd04115          12 NVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEID-----GERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVT   86 (170)
T ss_pred             CCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEEC-----CeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECC
Confidence            58999998654     33444444433333334444     456899999999999987 46788889999999999998


Q ss_pred             CCCChhHHHHHH-HHHH----cCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQVALK-QAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~~~~~-~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.+....|. .+..    .++|+++|+||+|+...
T Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  124 (170)
T cd04115          87 NMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQ  124 (170)
T ss_pred             CHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhh
Confidence            765544443332 2222    46899999999998653

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.46  E-value=1.8e-13  Score=99.92  Aligned_cols=100  Identities=16%  Similarity=0.085  Sum_probs=67.9

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++..+..     +..+.+. +.....+...     +..+.+.+|||||+++|......+++.+|++++|+|.+.
T Consensus        11 ~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (164)
T cd04175          11 GVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVD-----GQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITA   84 (164)
T ss_pred             CCCHHHHHHHHHhCCCCcccCCcch-heEEEEEEEC-----CEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCC
Confidence            6899999766542     2222221 1111233333     446788999999999999999999999999999999875


Q ss_pred             CCChhHH-HHHHHH----HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... .++..+    ...++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  120 (164)
T cd04175          85 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED  120 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchh
Confidence            4332221 122222    224789999999999965

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.46  E-value=2e-13  Score=99.07  Aligned_cols=100  Identities=15%  Similarity=0.109  Sum_probs=67.4

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..+.+. +.....+...     +..+.+.||||||+++|......+++.+|++++|+|.++
T Consensus        11 ~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   84 (163)
T cd04136          11 GVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVD-----GQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITS   84 (163)
T ss_pred             CCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEEC-----CEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCC
Confidence            6899998765542     2222221 1112223333     446789999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... .++..+.    ..++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  120 (163)
T cd04136          85 QSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLED  120 (163)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            4332222 1222222    23689999999999864

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.46  E-value=4.8e-14  Score=106.92  Aligned_cols=101  Identities=22%  Similarity=0.133  Sum_probs=69.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..++++++.....+.+.     +..+.+.||||||++++...+..+++.++++++|+|+++
T Consensus        16 ~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~   90 (199)
T cd04110          16 GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEIN-----GERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN   90 (199)
T ss_pred             CCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEEC-----CEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCC
Confidence            6899999866542     333444333332333333     446789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+..  ...|+++|+||+|+..
T Consensus        91 ~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~  124 (199)
T cd04110          91 GESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPE  124 (199)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc
Confidence            44332222 2222222  3689999999999864

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.46  E-value=7.9e-14  Score=102.08  Aligned_cols=101  Identities=16%  Similarity=0.091  Sum_probs=67.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.+.....+.+.     +..+++.+|||||++.+......+++.+|++|+|+|+.+
T Consensus        10 ~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (172)
T cd01862          10 GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVD-----DKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTN   84 (172)
T ss_pred             CCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEEC-----CEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCC
Confidence            689999886654322     2222222222233343     446789999999999999999999999999999999986


Q ss_pred             CCChhHHHHHH--HHHH------cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVALK--QAWL------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~~--~~~~------~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......|.  ....      .++|+++|+||+|+..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  123 (172)
T cd01862          85 PKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE  123 (172)
T ss_pred             HHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc
Confidence            44322222221  1111      2789999999999974

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-

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.46  E-value=4.8e-14  Score=102.33  Aligned_cols=101  Identities=19%  Similarity=0.124  Sum_probs=70.6

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++..     ...+.++.+.....+.+.     +...++.+|||||++++......+++.+|++++|+|+++
T Consensus        10 ~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (164)
T smart00175       10 GVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVD-----GKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITN   84 (164)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            6899999866532     223344433333344444     445789999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+..   .++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~  119 (164)
T smart00175       85 RESFENLKNWLKELREYADPNVVIMLVGNKSDLED  119 (164)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhccc
Confidence            4443332222 22222   4689999999999865

Rab GTPases are implicated in vesicle trafficking.

>cd04128 Spg1 Spg1p

Probab=99.46  E-value=2.5e-13  Score=101.90  Aligned_cols=99  Identities=15%  Similarity=0.104  Sum_probs=67.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++.++     .++..+.+..+.....+...     +..+.+.+|||+|+++|...+..+++.+|++++|+|+++
T Consensus        10 ~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~-----~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~   84 (182)
T cd04128          10 QIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIR-----GTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTR   84 (182)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEEC-----CEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcC
Confidence            57999887444     44444444443322334444     457899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcch
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~  106 (161)
                      ..+..... ++..+..   ...| |+|+||+|+.
T Consensus        85 ~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~  117 (182)
T cd04128          85 KSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLF  117 (182)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhcc
Confidence            54433322 2222222   2455 7899999995

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.46  E-value=1.3e-13  Score=103.55  Aligned_cols=100  Identities=18%  Similarity=0.103  Sum_probs=67.2

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++..     +..+.+.... ...+...     +..+.+.||||||+++|...+..+++.+|++++|+|+++
T Consensus        15 ~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~   88 (189)
T PTZ00369         15 GVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVID-----EETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITS   88 (189)
T ss_pred             CCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEEC-----CEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCC
Confidence            6899999755543     2222222111 1222233     446789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHH----HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... +...+    ...++|+++|+||+|+..
T Consensus        89 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  124 (189)
T PTZ00369         89 RSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS  124 (189)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            54322221 11112    224789999999999864

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.45  E-value=1.3e-13  Score=114.96  Aligned_cols=100  Identities=23%  Similarity=0.155  Sum_probs=87.6

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh-----------HHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-----------SSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-----------~~~~~~~l~~   64 (161)
                      |+||+++++.+..|.      .+|.|++.....+.|+       ..++.++||+|..+-           ..-+..++..
T Consensus       188 NvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~-------~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~  260 (444)
T COG1160         188 NVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERD-------GRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIER  260 (444)
T ss_pred             CCCchHHHHHhccCceEEecCCCCccccceeeeEEEC-------CeEEEEEECCCCCcccccccceEEEeehhhHhHHhh
Confidence            899999998885543      5799999999999988       679999999998542           2237788999


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|.+++|+|+++++..|+..+..++...+.++++|+||+|+...
T Consensus       261 a~vvllviDa~~~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~  304 (444)
T COG1160         261 ADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVIVVNKWDLVEE  304 (444)
T ss_pred             cCEEEEEEECCCCchHHHHHHHHHHHHcCCCeEEEEEccccCCc
Confidence            99999999999999999999999999999999999999998754

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.45  E-value=1.8e-13  Score=105.57  Aligned_cols=101  Identities=14%  Similarity=0.139  Sum_probs=70.1

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     ..+..+.+..+.....+...     +..+.+.+|||||+++|...+..+++.+|++|+|+|.++
T Consensus        23 gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~   97 (219)
T PLN03071         23 GTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTN-----CGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTA   97 (219)
T ss_pred             CCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEEC-----CeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCC
Confidence            57999987554     33334444333332333333     346899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+.  ..++|+++|+||+|+..
T Consensus        98 ~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~  131 (219)
T PLN03071         98 RLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKN  131 (219)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhh
Confidence            5443332222 2222  24789999999999864

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.45  E-value=2.5e-13  Score=100.17  Aligned_cols=100  Identities=16%  Similarity=0.153  Sum_probs=68.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+..+.  ...-|+......+.+.       .+.+.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus         9 ~~GKTsl~~~l~~~~~~~~~~t~g~~~~~~~~~-------~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s   81 (167)
T cd04161           9 NAGKTTLVSALQGEIPKKVAPTVGFTPTKLRLD-------KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDR   81 (167)
T ss_pred             CCCHHHHHHHHhCCCCccccCcccceEEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhH
Confidence            589999876654321  1122333323333333       7899999999999999999999999999999999986432


Q ss_pred             hhH-HHHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          80 AQT-QVALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      ... ...+..+..    .++|+++|+||+|+...
T Consensus        82 ~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~  115 (167)
T cd04161          82 VQEVKEILRELLQHPRVSGKPILVLANKQDKKNA  115 (167)
T ss_pred             HHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCC
Confidence            222 222222221    47899999999998653

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.45  E-value=1.6e-13  Score=119.44  Aligned_cols=64  Identities=36%  Similarity=0.444  Sum_probs=60.3

Q ss_pred             EEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          43 INLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        43 i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++|||||||++|...+..+++.+|++++|+|+++++.+++...+..+...++|+++|+||+|+.
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vpiIvviNK~D~~  136 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTPFVVAANKIDRI  136 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCCEEEEEECcCCc
Confidence            7999999999999999999999999999999999999999998888888899999999999985

>cd01866 Rab2 Rab2 subfamily

Probab=99.45  E-value=1.5e-13  Score=101.05  Aligned_cols=101  Identities=17%  Similarity=0.151  Sum_probs=69.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.+.....+...     +....+.+|||||+++|......+++.+|++++|+|+++
T Consensus        14 ~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~   88 (168)
T cd01866          14 GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITID-----GKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   88 (168)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCC
Confidence            689999987775332     1222222222223333     446789999999999999999999999999999999985


Q ss_pred             CCChhHHHH-HHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVA-LKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~-~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+...... +..+..   .++|+++|+||+|+..
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~  123 (168)
T cd01866          89 RETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLES  123 (168)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence            433333222 222222   3789999999999974

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.45  E-value=9.7e-14  Score=101.08  Aligned_cols=100  Identities=18%  Similarity=0.147  Sum_probs=66.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+.+. +.....+...     +..+.+.+|||||++++......+++.+|++++|+|++.
T Consensus        10 ~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (164)
T smart00173       10 GVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEID-----GEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITD   83 (164)
T ss_pred             CCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEEC-----CEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCC
Confidence            68999998655432     222222 1111222233     446789999999999999999999999999999999986


Q ss_pred             CCChhHHHH-----HHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVA-----LKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~-----~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......     .+.....++|+++|+||+|+..
T Consensus        84 ~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~  119 (164)
T smart00173       84 RQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES  119 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            433222111     1111223689999999999864

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.45  E-value=4.7e-14  Score=103.23  Aligned_cols=101  Identities=20%  Similarity=0.122  Sum_probs=69.5

Q ss_pred             ccccccccCCchhHH---HcCCcc--ccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ---ERGITM--KSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~---~~giti--~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++..+....   ..+.|+  +.....+.+.     +....+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        17 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   91 (169)
T cd04114          17 GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIK-----GEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITC   91 (169)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            689999987764221   223333  2222334444     446789999999999999999999999999999999986


Q ss_pred             CCChhHHHHH----HHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL----KQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~----~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +.+......|    ......++|+++|+||+|+..
T Consensus        92 ~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~  126 (169)
T cd04114          92 EESFRCLPEWLREIEQYANNKVITILVGNKIDLAE  126 (169)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            5433222222    222234689999999999864

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.

>PTZ00099 rab6; Provisional

Probab=99.45  E-value=2.5e-13  Score=101.60  Aligned_cols=93  Identities=20%  Similarity=0.200  Sum_probs=67.1

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH-HHHH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV-ALKQ   88 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~-~~~~   88 (161)
                      +.|.+++.+++..+.....+.+.     ++.+++.||||||+++|...+..+++.+|++|+|+|+++..+..... ++..
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~-----~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~   77 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLD-----EGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQD   77 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEEC-----CEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHH
Confidence            45666666666655544444444     55789999999999999999999999999999999998644332222 2222


Q ss_pred             H-HH--cCCCcEEEEECCcchh
Q psy2609          89 A-WL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        89 ~-~~--~~~p~ilv~NK~Dl~~  107 (161)
                      + ..  .++|++||+||+|+..
T Consensus        78 i~~~~~~~~piilVgNK~DL~~   99 (176)
T PTZ00099         78 ILNERGKDVIIALVGNKTDLGD   99 (176)
T ss_pred             HHHhcCCCCeEEEEEECccccc
Confidence            2 22  3678899999999964

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.45  E-value=1.1e-13  Score=100.71  Aligned_cols=103  Identities=15%  Similarity=0.032  Sum_probs=69.3

Q ss_pred             ccccccccCCc-------hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSR-------KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~-------~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      ++|||+++..+       +.+..+++..+.....+...    ++...++.+|||||++++...+..+++.+|++++|+|.
T Consensus        10 ~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~   85 (164)
T cd04101          10 AVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVD----TDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDV   85 (164)
T ss_pred             CCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeC----CCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEEC
Confidence            58999997544       33333333333222233332    14578999999999999999999999999999999999


Q ss_pred             CCCCChhHH-HHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          75 VEGICAQTQ-VALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        75 ~~~~~~~~~-~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ++..+.... .+...+..  .++|+++|+||+|+...
T Consensus        86 ~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  122 (164)
T cd04101          86 SNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADK  122 (164)
T ss_pred             cCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccc
Confidence            854332222 22222222  36899999999998643

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.

>PLN03118 Rab family protein; Provisional

Probab=99.45  E-value=9.4e-14  Score=106.15  Aligned_cols=101  Identities=20%  Similarity=0.108  Sum_probs=69.3

Q ss_pred             ccccccccCCchhH----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDE----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+..+    ..+..+.+.....+.+.     +..+++.||||||+++|...+..+++.+|++|+|+|+++.
T Consensus        24 ~vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~   98 (211)
T PLN03118         24 GVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVG-----GKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRR   98 (211)
T ss_pred             CCCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCH
Confidence            68999998666432    22333332222233333     4468899999999999999999999999999999999864


Q ss_pred             CChhHH-HHHHH-HH----HcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQ-VALKQ-AW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~-~~~~~-~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .+.... ..|.. +.    ..++|+++|+||+|+..
T Consensus        99 ~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~  134 (211)
T PLN03118         99 ETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRES  134 (211)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            433332 22221 21    13578999999999864

>cd04144 Ras2 Ras2 subfamily

Probab=99.45  E-value=2e-13  Score=102.62  Aligned_cols=100  Identities=12%  Similarity=0.119  Sum_probs=67.0

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     ++..+.+.... ...+.+.     +..+.+.||||||+++|......+++.+|++|+|+|.++
T Consensus         9 ~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~   82 (190)
T cd04144           9 GVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVD-----GQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITS   82 (190)
T ss_pred             CCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCC
Confidence            689999975443     22222222111 1122233     446789999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH------cCCCcEEEEECCcchh
Q psy2609          77 GICAQT-QVALKQAWL------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~------~~~p~ilv~NK~Dl~~  107 (161)
                      ..+... ..++..+..      .++|+++|+||+|+..
T Consensus        83 ~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~  120 (190)
T cd04144          83 RSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVY  120 (190)
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccc
Confidence            543332 222222221      3689999999999964

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.45  E-value=1.7e-13  Score=101.96  Aligned_cols=100  Identities=14%  Similarity=0.074  Sum_probs=69.9

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||.++     ..+.++..+.+. +.....+.+.     +..+++.||||||++++...+..+++.+|++|+|+|.++
T Consensus        11 ~vGKSsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (174)
T cd01871          11 AVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVD-----GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVS   84 (174)
T ss_pred             CCCHHHHHHHHhcCCCCCcCCCcce-eeeEEEEEEC-----CEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCC
Confidence            58999998     455555554442 1111223333     457899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VAL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+.... ..| ..+.  ..++|+++|+||+|+..
T Consensus        85 ~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~  119 (174)
T cd01871          85 PASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRD  119 (174)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhcc
Confidence            4443332 112 2222  23689999999999964

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

>cd01875 RhoG RhoG subfamily

Probab=99.45  E-value=2e-13  Score=103.02  Aligned_cols=100  Identities=12%  Similarity=0.009  Sum_probs=68.5

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++..+     +++..+.+.... ...+...     +..+.+.+|||||+++|......+++.+|++|+|+|.++
T Consensus        13 ~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~   86 (191)
T cd01875          13 AVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVD-----GRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIAS   86 (191)
T ss_pred             CCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEEC-----CEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCC
Confidence            47899887443     344444432211 1112222     457899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-AL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... .| ..+.  ..++|++||+||+||..
T Consensus        87 ~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~  121 (191)
T cd01875          87 PSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRN  121 (191)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhc
Confidence            54433332 22 2122  24799999999999964

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.45  E-value=1.1e-13  Score=99.98  Aligned_cols=100  Identities=17%  Similarity=0.124  Sum_probs=66.7

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+.+. ......+...     +..+.+.+|||||++++...+..+++.+|++++|+|.++
T Consensus        11 ~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~   84 (162)
T cd04138          11 GVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVID-----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINS   84 (162)
T ss_pred             CCCHHHHHHHHHhCCCcCCcCCcch-heEEEEEEEC-----CEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCC
Confidence            68999998665432     222221 1111222233     345678999999999999999999999999999999985


Q ss_pred             CCChhHHH-HHHHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+.    ..++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~  120 (162)
T cd04138          85 RKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA  120 (162)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            43322221 122222    24789999999999865

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.45  E-value=1.5e-13  Score=99.76  Aligned_cols=101  Identities=18%  Similarity=0.155  Sum_probs=70.0

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+.++.+.....+...     +..+.+.+|||||++++......+++.+|++|+|+|+++
T Consensus        10 ~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~   84 (168)
T cd04119          10 GVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVR-----NKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTD   84 (168)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-----CeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCC
Confidence            6899999866543     334444444333344444     457899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH--------cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL--------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~--------~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... +...+..        .+.|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  124 (168)
T cd04119          85 RQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTK  124 (168)
T ss_pred             HHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccc
Confidence            43322221 1121111        3588999999999863

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.45  E-value=2.2e-13  Score=99.04  Aligned_cols=99  Identities=13%  Similarity=-0.008  Sum_probs=66.4

Q ss_pred             ccccccccCCchhHHHcC--CccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERG--ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~g--iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+..+....  -|+......+.+       ...++.+|||||+++|...+..+++.+|++++|+|+++..+
T Consensus         9 ~~GKTsl~~~l~~~~~~~~~~t~~~~~~~~~~-------~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~   81 (158)
T cd04151           9 NAGKTTILYRLQLGEVVTTIPTIGFNVETVTY-------KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDR   81 (158)
T ss_pred             CCCHHHHHHHHccCCCcCcCCccCcCeEEEEE-------CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHH
Confidence            689999987663222111  122222222333       26799999999999999999999999999999999986422


Q ss_pred             hh--HHHHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          80 AQ--TQVALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~--~~~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..  ...+...+.   ..++|+++|+||+|+..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          82 LGTAKEELHAMLEEEELKGAVLLVFANKQDMPG  114 (158)
T ss_pred             HHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence            11  122222222   14789999999999864

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.45  E-value=1.3e-13  Score=101.28  Aligned_cols=102  Identities=17%  Similarity=0.034  Sum_probs=68.4

Q ss_pred             ccccccccCCchhHHHcCC---ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGI---TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~gi---ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      +||||+++..+...+-++.   +.........+.     +..+++.+|||||++++...+..+++.+|++++|+|+++..
T Consensus        10 ~vGKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~   84 (166)
T cd01893          10 GVGKSSLIMSLVSEEFPENVPRVLPEITIPADVT-----PERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPS   84 (166)
T ss_pred             CCCHHHHHHHHHhCcCCccCCCcccceEeeeeec-----CCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHH
Confidence            6899999877654332111   111111222232     45789999999999988888888899999999999998655


Q ss_pred             ChhHH-HHH-HHHH--HcCCCcEEEEECCcchhh
Q psy2609          79 CAQTQ-VAL-KQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        79 ~~~~~-~~~-~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      +.... ..| ..+.  ..++|+++|+||+|+...
T Consensus        85 s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~  118 (166)
T cd01893          85 TLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDG  118 (166)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccc
Confidence            44332 122 2222  237899999999999654

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.44  E-value=2.8e-13  Score=99.28  Aligned_cols=102  Identities=16%  Similarity=0.107  Sum_probs=68.2

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++....     .+.++.+.....+...     +...++.+|||||++++...+..+++.+|++++|+|.++
T Consensus        11 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~   85 (165)
T cd01865          11 SVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRN-----DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN   85 (165)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCC
Confidence            689999987664333     2222222221222222     446889999999999999999999999999999999985


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .+...+..   .+.|+++|+||+|+...
T Consensus        86 ~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~  121 (165)
T cd01865          86 EESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDE  121 (165)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcc
Confidence            4332221 22222222   36789999999999643

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.44  E-value=8.7e-14  Score=101.05  Aligned_cols=101  Identities=21%  Similarity=0.147  Sum_probs=69.1

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+..+.+.....+.+.     +..+++.+|||||++++.......++.+|++++|+|+++
T Consensus        10 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (161)
T cd01863          10 GVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVD-----GKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTR   84 (161)
T ss_pred             CCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEEC-----CEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCC
Confidence            6899999865542     223333333222333343     446889999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHH----HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+    ...++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~  120 (161)
T cd01863          85 RDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN  120 (161)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc
Confidence            4433332222 212    235788999999999973

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.43  E-value=1.6e-13  Score=103.87  Aligned_cols=102  Identities=12%  Similarity=0.035  Sum_probs=67.9

Q ss_pred             ccccccccCCchhHHH---cCCcc-ccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE---RGITM-KSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~---~giti-~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....-   ..-|+ ......+.+.     +..+.+.||||||+.+|......+++.+|++++|+|+++.
T Consensus         9 ~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~   83 (198)
T cd04147           9 GVGKTALIQRFLYDTFEPKYRRTVEEMHRKEYEVG-----GVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDP   83 (198)
T ss_pred             CCCHHHHHHHHHhCCCCccCCCchhhheeEEEEEC-----CEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCH
Confidence            5899999865543221   11111 2222333444     4457899999999999998888999999999999999864


Q ss_pred             CChhHHHHH-HHH----HHcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQVAL-KQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~~~~-~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+......| ..+    ...++|+++|+||+|+...
T Consensus        84 ~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~  119 (198)
T cd04147          84 ESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEE  119 (198)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccc
Confidence            333222211 111    1247999999999999653

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.43  E-value=2.6e-13  Score=100.33  Aligned_cols=97  Identities=15%  Similarity=0.077  Sum_probs=66.1

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+..+.    .++++..  ...+.+       .++++.+|||||++++...+..+++.+|++|+|+|+++.
T Consensus        19 ~~GKTsli~~l~~~~~~~~~~t~g~~--~~~~~~-------~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~   89 (168)
T cd04149          19 AAGKTTILYKLKLGQSVTTIPTVGFN--VETVTY-------KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADR   89 (168)
T ss_pred             CCCHHHHHHHHccCCCccccCCcccc--eEEEEE-------CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCch
Confidence            689999976654321    2222222  222222       378999999999999999999999999999999999864


Q ss_pred             CChhH-HHHH-HHHH---HcCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVAL-KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~-~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .+... ...+ ..+.   ..++|++||+||+|+..
T Consensus        90 ~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  124 (168)
T cd04149          90 DRIDEARQELHRIINDREMRDALLLVFANKQDLPD  124 (168)
T ss_pred             hhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence            32221 1222 2221   24689999999999864

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

>KOG0095|consensus

Probab=99.43  E-value=1.4e-12  Score=94.48  Aligned_cols=99  Identities=20%  Similarity=0.111  Sum_probs=69.2

Q ss_pred             cccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           5 VSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         5 ~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      |+-++-+|     |.-+...|.++....++..+     +++.++.||||+|+++|++.+.+||+.|++.|+|+|.+-.++
T Consensus        20 ktclvrrftqglfppgqgatigvdfmiktvev~-----gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqps   94 (213)
T KOG0095|consen   20 KTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVN-----GEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPS   94 (213)
T ss_pred             cchhhhhhhccCCCCCCCceeeeeEEEEEEEEC-----CeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcc
Confidence            55544333     44443344445444555555     679999999999999999999999999999999999986665


Q ss_pred             hhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          80 AQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..-.. +++.+.   ..++-.|+|+||+|+...
T Consensus        95 fdclpewlreie~yan~kvlkilvgnk~d~~dr  127 (213)
T KOG0095|consen   95 FDCLPEWLREIEQYANNKVLKILVGNKIDLADR  127 (213)
T ss_pred             hhhhHHHHHHHHHHhhcceEEEeeccccchhhh
Confidence            33322 222222   234556899999999754

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.43  E-value=3.4e-13  Score=101.33  Aligned_cols=100  Identities=12%  Similarity=0.065  Sum_probs=69.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++.++     ..+..+.+.... ...+...     ++.+.+.+|||+|+++|......+++.+|++++|+|.++
T Consensus        15 ~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~-----~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~   88 (182)
T cd04172          15 QCGKTALLHVFAKDCFPENYVPTVFENY-TASFEID-----TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   88 (182)
T ss_pred             CCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEEC-----CEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCC
Confidence            47899887544     344444443221 1223333     557899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHH-HHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VAL-KQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~-~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... ..| ..+..  .+.|++||+||+||..
T Consensus        89 ~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~  123 (182)
T cd04172          89 PETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  123 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhc
Confidence            5544432 222 22222  3689999999999853

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.43  E-value=2.9e-13  Score=100.79  Aligned_cols=101  Identities=15%  Similarity=0.079  Sum_probs=68.8

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     +.+..+.+..... ..+.+.     ++.+++.+|||||+++|...+..+++.+|++|+|+|.++
T Consensus        11 ~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~   84 (175)
T cd01874          11 AVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIG-----GEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVS   84 (175)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEEC-----CEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCC
Confidence            57899887444     3344444432211 123333     446899999999999999988999999999999999986


Q ss_pred             CCChhHH-H-HHHHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-V-ALKQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~-~~~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... . +...+.  ..++|+++|+||+|+...
T Consensus        85 ~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~  120 (175)
T cd01874          85 PSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD  120 (175)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhC
Confidence            5443332 1 222222  237899999999998653

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.43  E-value=3.8e-13  Score=98.58  Aligned_cols=101  Identities=16%  Similarity=0.063  Sum_probs=67.3

Q ss_pred             ccccccccCCchhHH---HcCCccccceE-EEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ---ERGITMKSSSI-SLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~---~~giti~~~~~-~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....   ..-.|+..... .+.+.     .+.+.+.+|||||+++|......+++.+|++++|+|.+..
T Consensus        11 ~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~   85 (165)
T cd04140          11 GVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCS-----KNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSK   85 (165)
T ss_pred             CCCHHHHHHHHHhCCCCCCcCCcchheEEEEEEEC-----CEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCH
Confidence            689999986654322   11111211111 12222     3467899999999999999999999999999999999865


Q ss_pred             CChhH-HHHHHHHHH------cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQAWL------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~------~~~p~ilv~NK~Dl~~  107 (161)
                      .+... ..++..+..      .++|+++|+||+|+..
T Consensus        86 ~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  122 (165)
T cd04140          86 QSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESH  122 (165)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccc
Confidence            44332 222232322      4689999999999965

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.42  E-value=4.2e-13  Score=104.03  Aligned_cols=100  Identities=13%  Similarity=0.097  Sum_probs=71.0

Q ss_pred             ccccccccC-----CchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMD-----SRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D-----~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++.     .+++++.+++..... ..+.+.     +..+.+.||||+|+++|......+++.+|++|+|+|.++
T Consensus        11 ~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~-----~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~   84 (222)
T cd04173          11 ECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEID-----KRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISR   84 (222)
T ss_pred             CCCHHHHHHHHHcCCCCCccCCccccceE-EEEEEC-----CEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCC
Confidence            578998874     455566665543321 233343     557899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHH-HH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQ-AW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~-~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+.... ..|.. ..  ..++|+|||+||+|+..
T Consensus        85 ~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~  119 (222)
T cd04173          85 PETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRT  119 (222)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEEECccccc
Confidence            5433332 22321 11  24789999999999954

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

>cd04131 Rnd Rnd subfamily

Probab=99.42  E-value=2.8e-13  Score=101.34  Aligned_cols=100  Identities=12%  Similarity=0.065  Sum_probs=69.1

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..+     +.+..+.+.... ...+...     ++.+.+.+|||||+++|......+++.+|++|+|+|.++
T Consensus        11 ~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~   84 (178)
T cd04131          11 QCGKTALLQVFAKDCYPETYVPTVFENY-TASFEID-----EQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISR   84 (178)
T ss_pred             CCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEEC-----CEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCC
Confidence            57899987544     334434332221 1223333     557899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHH-HHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VAL-KQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~-~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... ..| ..+..  .++|+++|+||+||..
T Consensus        85 ~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~  119 (178)
T cd04131          85 PETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRT  119 (178)
T ss_pred             hhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhc
Confidence            5554432 222 22222  4789999999999853

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.42  E-value=2.5e-13  Score=100.40  Aligned_cols=99  Identities=18%  Similarity=0.144  Sum_probs=66.1

Q ss_pred             ccccccccCCchhHHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+..+.-.  .-|+......+.+.       .+++.+|||||++++...+..+++.+|++++|+|++...+
T Consensus        24 ~~GKTsL~~~l~~~~~~~~~~t~g~~~~~~~~~-------~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   96 (173)
T cd04154          24 NAGKTTILKKLLGEDIDTISPTLGFQIKTLEYE-------GYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLR   96 (173)
T ss_pred             CCCHHHHHHHHccCCCCCcCCccccceEEEEEC-------CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHH
Confidence            68999987655432111  11222222233333       6789999999999999999999999999999999986532


Q ss_pred             hhH-HHHH-HHH---HHcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVAL-KQA---WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~-~~~---~~~~~p~ilv~NK~Dl~~  107 (161)
                      ... ...+ ..+   ...++|+++|+||+|+..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  129 (173)
T cd04154          97 LDDCKRELKELLQEERLAGATLLILANKQDLPG  129 (173)
T ss_pred             HHHHHHHHHHHHhChhhcCCCEEEEEECccccc
Confidence            211 1111 111   225789999999999864

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.42  E-value=2e-13  Score=105.03  Aligned_cols=101  Identities=16%  Similarity=0.083  Sum_probs=71.2

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++||++++..+.     .+..+.+.++.....+.+.     +..+++.+|||||+++|......+++.++++|+|+|.++
T Consensus        22 ~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   96 (216)
T PLN03110         22 GVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVE-----GKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK   96 (216)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            589999985543     3333444444333444444     446899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+..   .++|+++|+||+|+..
T Consensus        97 ~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  131 (216)
T PLN03110         97 RQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNH  131 (216)
T ss_pred             hHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhccc
Confidence            44333322 2222222   4789999999999854

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.42  E-value=2.8e-13  Score=98.15  Aligned_cols=99  Identities=16%  Similarity=0.080  Sum_probs=67.6

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  +...|+......+.+.       ...+.+|||||++++......+++.+|++++|+|++.+..
T Consensus         9 ~~GKssli~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~   81 (158)
T cd00878           9 GAGKTTILYKLKLGEVVTTIPTIGFNVETVEYK-------NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRER   81 (158)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcCcceEEEEEC-------CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHH
Confidence            589999976653221  1222333333334443       6799999999999999999999999999999999986422


Q ss_pred             hh-HHHHHHH----HHHcCCCcEEEEECCcchh
Q psy2609          80 AQ-TQVALKQ----AWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~-~~~~~~~----~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .. ....+..    ....+.|+++|+||+|+..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~  114 (158)
T cd00878          82 IEEAKEELHKLLNEEELKGVPLLIFANKQDLPG  114 (158)
T ss_pred             HHHHHHHHHHHHhCcccCCCcEEEEeeccCCcc
Confidence            11 1122221    1235789999999999875

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

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.42  E-value=4.2e-13  Score=100.58  Aligned_cols=99  Identities=15%  Similarity=0.066  Sum_probs=67.8

Q ss_pred             ccccccccCCchhHHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||+++..+..+.-.  .-|.......+.+.       ++++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        27 ~~GKTsli~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~   99 (184)
T smart00178       27 NAGKTTLLHMLKNDRLAQHQPTQHPTSEELAIG-------NIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKER   99 (184)
T ss_pred             CCCHHHHHHHHhcCCCcccCCccccceEEEEEC-------CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHH
Confidence            68999998777654211  11222222333333       6899999999999999999999999999999999986422


Q ss_pred             hhH-H-HHHHHH---HHcCCCcEEEEECCcchh
Q psy2609          80 AQT-Q-VALKQA---WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~-~~~~~~---~~~~~p~ilv~NK~Dl~~  107 (161)
                      ... . .+...+   ...++|+++|+||+|+..
T Consensus       100 ~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~  132 (184)
T smart00178      100 FAESKRELDALLSDEELATVPFLILGNKIDAPY  132 (184)
T ss_pred             HHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            111 1 121222   125789999999999863

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.42  E-value=5.8e-13  Score=97.46  Aligned_cols=97  Identities=15%  Similarity=0.062  Sum_probs=65.2

Q ss_pred             ccccccccCCchhH----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDE----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++.++...    ..+.+.  .....+.+       ..+++.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        10 ~~GKTsli~~l~~~~~~~~~pt~g--~~~~~~~~-------~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~   80 (159)
T cd04150          10 AAGKTTILYKLKLGEIVTTIPTIG--FNVETVEY-------KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR   80 (159)
T ss_pred             CCCHHHHHHHHhcCCCcccCCCCC--cceEEEEE-------CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCH
Confidence            68999987665321    122222  22222222       278999999999999999999999999999999999853


Q ss_pred             CChhH-HHHHHHH-H---HcCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQA-W---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~-~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .+... ...+..+ .   ..+.|+++++||+|+..
T Consensus        81 ~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  115 (159)
T cd04150          81 ERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN  115 (159)
T ss_pred             HHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence            22111 1222222 1   13589999999999864

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.42  E-value=3.8e-13  Score=100.65  Aligned_cols=102  Identities=14%  Similarity=0.092  Sum_probs=67.2

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....    .+.++.......+...    ++....+.+|||||+++|...+..+++.+|++++|+|+++.
T Consensus        13 ~~GKTsli~~~~~~~~~~~~~t~~~~~~~~~~~~~----~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   88 (183)
T cd04152          13 SAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLG----NSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDV   88 (183)
T ss_pred             CCCHHHHHHHHhcCCcCCcCCccccceeEEEeecc----CCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCH
Confidence            689999986664321    1212222222222221    13468999999999999999999999999999999999864


Q ss_pred             CChhHH-----HHHHHHHHcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQ-----VALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~-----~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      -.....     .+.......++|+++|+||+|+..
T Consensus        89 ~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~  123 (183)
T cd04152          89 ERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN  123 (183)
T ss_pred             HHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc
Confidence            222111     122222335799999999999863

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.

>cd04133 Rop_like Rop subfamily

Probab=99.42  E-value=2.8e-13  Score=101.36  Aligned_cols=100  Identities=11%  Similarity=0.054  Sum_probs=70.2

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++     ..+..+..+.+.... ...+...     +..+++.||||+|+++|......+++.+|++|+|+|.++
T Consensus        11 ~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~-----~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~   84 (176)
T cd04133          11 AVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVD-----GNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLIS   84 (176)
T ss_pred             CCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEEC-----CEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCC
Confidence            46888876     445555555443221 1122233     557899999999999999999999999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+....  .++..+..  .++|++||+||+|+..
T Consensus        85 ~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~  119 (176)
T cd04133          85 RASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRD  119 (176)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhcc
Confidence            5554442  22333322  4789999999999954

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,

>cd01898 Obg Obg subfamily

Probab=99.41  E-value=1.6e-13  Score=100.37  Aligned_cols=103  Identities=17%  Similarity=0.075  Sum_probs=64.4

Q ss_pred             CccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEE
Q psy2609           1 MLCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGT   68 (161)
Q Consensus         1 ~~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~   68 (161)
                      .+||||++++.+..+.     .++.|+......+.+.      ...++.||||||+.+       +.......+..+|++
T Consensus         9 ~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~------~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~v   82 (170)
T cd01898           9 PNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVD------DGRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLL   82 (170)
T ss_pred             CCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcC------CCCeEEEEecCcccCcccccCCchHHHHHHHHhCCEE
Confidence            3799999998886543     1344444333333333      124899999999732       233344456679999


Q ss_pred             EEEEeCCCC-CChhHH-HHHHHHHH-----cCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEG-ICAQTQ-VALKQAWL-----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~-~~~~~~-~~~~~~~~-----~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|++.. -..... .+.+.+..     .++|+++|+||+|+....
T Consensus        83 i~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~  130 (170)
T cd01898          83 LHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEE  130 (170)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCch
Confidence            999999865 222222 22222222     368999999999986543

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.41  E-value=6e-13  Score=118.38  Aligned_cols=100  Identities=20%  Similarity=0.128  Sum_probs=78.5

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh----------hHHH-HHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD----------FSSE-VSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~----------~~~~-~~~~l~~   64 (161)
                      |+|||++++.+..+.      .+|.|++.....+.+.       +.++.||||||+.+          |... +..+++.
T Consensus       460 nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~-------~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~  532 (712)
T PRK09518        460 NVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEID-------GEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIER  532 (712)
T ss_pred             CCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEEC-------CCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhc
Confidence            799999997775543      4688887766666665       45788999999642          2221 3456789


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|++++|+|++.+.+.++..++..+...++|+++|+||+|+...
T Consensus       533 advvilViDat~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~~  576 (712)
T PRK09518        533 SELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDLMDE  576 (712)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEEchhcCCh
Confidence            99999999999999888888888777789999999999999653

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.41  E-value=6.6e-13  Score=121.12  Aligned_cols=105  Identities=27%  Similarity=0.286  Sum_probs=86.4

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCC-----------CCCceeEEEEeCCCchhhHHHHHHHHHhc
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKD-----------TPEEYLINLIDSPGHVDFSSEVSTAVRLC   65 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~-----------~~~~~~i~iiDTpG~~~~~~~~~~~l~~~   65 (161)
                      +.+||+++|...     ++...|||.......+.+.....           ..+.-.+.|||||||+.|......+++.+
T Consensus       471 ~~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~a  550 (1049)
T PRK14845        471 LVHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLA  550 (1049)
T ss_pred             ecccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccC
Confidence            346899998875     55677999999988887752100           00112389999999999999888889999


Q ss_pred             CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          66 DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      |++++|+|+++++.+++.+.+..+...++|+++|+||+|+.
T Consensus       551 DivlLVVDa~~Gi~~qT~e~I~~lk~~~iPiIVViNKiDL~  591 (1049)
T PRK14845        551 DLAVLVVDINEGFKPQTIEAINILRQYKTPFVVAANKIDLI  591 (1049)
T ss_pred             CEEEEEEECcccCCHhHHHHHHHHHHcCCCEEEEEECCCCc
Confidence            99999999999999999999988888899999999999985

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.41  E-value=4.9e-13  Score=99.75  Aligned_cols=102  Identities=11%  Similarity=-0.026  Sum_probs=67.1

Q ss_pred             ccccccccCCchhHHHc---CCccccceE-EEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER---GITMKSSSI-SLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~---giti~~~~~-~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+..+.-.   .-|+..... .+...    ++..+.+.+|||||+++|......+++.+|++++|+|+++.
T Consensus        10 ~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~   85 (187)
T cd04132          10 GCGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGP----NGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNP   85 (187)
T ss_pred             CCCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEec----CCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCH
Confidence            58999998665433211   112211111 11111    14467899999999999999999999999999999999864


Q ss_pred             CChhHHH-HH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQV-AL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~-~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      .+..... .| ....  ..++|+++|+||+|+..
T Consensus        86 ~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  119 (187)
T cd04132          86 TSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRK  119 (187)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhh
Confidence            4333321 12 1122  24789999999999864

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.40  E-value=7.4e-13  Score=99.19  Aligned_cols=98  Identities=15%  Similarity=0.055  Sum_probs=66.1

Q ss_pred             ccccccccCCchh----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKD----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++.++..    +..+++..  ....+.+       +.+.+.+|||||++++...+..+++.+|++|+|+|+++.
T Consensus        27 ~~GKTsl~~~l~~~~~~~~~pt~g~--~~~~~~~-------~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~   97 (181)
T PLN00223         27 AAGKTTILYKLKLGEIVTTIPTIGF--NVETVEY-------KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR   97 (181)
T ss_pred             CCCHHHHHHHHccCCCccccCCcce--eEEEEEE-------CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcH
Confidence            6899988755532    12222222  2222333       378999999999999999999999999999999999854


Q ss_pred             CChhH-HHHHH-HHH---HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQT-QVALK-QAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~-~~~~~-~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+... ...+. .+.   ..++|+++|+||+|+...
T Consensus        98 ~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~  133 (181)
T PLN00223         98 DRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA  133 (181)
T ss_pred             HHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC
Confidence            32221 11122 211   137899999999998653

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.40  E-value=9.3e-14  Score=102.66  Aligned_cols=100  Identities=16%  Similarity=0.063  Sum_probs=67.4

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..     +..+..+.. .+.-...+...     +..+++.+|||||++++......+++.+|++|+|+|.++
T Consensus        10 ~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~   83 (173)
T cd04130          10 AVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVD-----GKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVN   83 (173)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEEC-----CEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCC
Confidence            5899998833     333333322 12111222233     446789999999999999888889999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.+..  .++..+..  .++|+++|+||+|+..
T Consensus        84 ~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  118 (173)
T cd04130          84 PSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRT  118 (173)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhcc
Confidence            5443332  23333332  4689999999999864

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,

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.40  E-value=8.5e-13  Score=102.95  Aligned_cols=100  Identities=10%  Similarity=0.052  Sum_probs=69.5

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++..     +..+..+.+..... ..+...     +..+.+.||||||+++|......+++.+|++|+|+|.++
T Consensus        23 ~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~-----~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~   96 (232)
T cd04174          23 QCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETE-----EQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISR   96 (232)
T ss_pred             CCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEEC-----CEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCC
Confidence            4788888744     44444444433221 223333     557899999999999999999999999999999999986


Q ss_pred             CCChhH-H-HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQT-Q-VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-~-~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+... . .++..+..  .++|+|||+||+|+..
T Consensus        97 ~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~  131 (232)
T cd04174          97 PETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRT  131 (232)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc
Confidence            554433 1 22222222  4789999999999853

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.40  E-value=1.4e-12  Score=94.85  Aligned_cols=101  Identities=24%  Similarity=0.195  Sum_probs=73.0

Q ss_pred             CccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh----------H-HHHHHHHH
Q psy2609           1 MLCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF----------S-SEVSTAVR   63 (161)
Q Consensus         1 ~~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~----------~-~~~~~~l~   63 (161)
                      .++|||++++.+-.      +..++.+.......+.+.       +..+.+|||||+.+.          . .....+++
T Consensus        11 ~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~   83 (174)
T cd01895          11 PNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYD-------GKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIE   83 (174)
T ss_pred             CCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEEC-------CeeEEEEECCCCccccchhccHHHHHHHHHHHHHh
Confidence            36899999876633      224555555444444444       457899999997443          1 12345678


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+|++++|+|+..+.......++......+.|+++++||+|+...
T Consensus        84 ~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          84 RADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLVEK  128 (174)
T ss_pred             hcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccCCc
Confidence            999999999999887777777777776678999999999998754

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.

>KOG0086|consensus

Probab=99.40  E-value=2.8e-13  Score=98.39  Aligned_cols=70  Identities=20%  Similarity=0.146  Sum_probs=55.0

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH----HHHHHcCCCcEEEEECCcchh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL----KQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~----~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.++++||||+|+++|++.+++||++|-++++|+|++..-+......|    +.+...++-+|+|+||.||..
T Consensus        55 gK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~  128 (214)
T KOG0086|consen   55 GKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDP  128 (214)
T ss_pred             CcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcCh
Confidence            6789999999999999999999999999999999999854333222222    223335667789999999964

>cd04109 Rab28 Rab28 subfamily

Probab=99.40  E-value=8.8e-13  Score=101.19  Aligned_cols=102  Identities=12%  Similarity=-0.026  Sum_probs=69.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     .+..+.++.+.....+.+..    +..+.+.||||||++.+......+++.+|++|+|+|+++
T Consensus        10 ~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~----~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~   85 (215)
T cd04109          10 AVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPG----NLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTN   85 (215)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCC----CCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCC
Confidence            689999986664     33444444443333343331    246899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH------cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~------~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... +...+..      .+.|+++|+||+|+..
T Consensus        86 ~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~  123 (215)
T cd04109          86 SQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEH  123 (215)
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccc
Confidence            43332222 2222222      2457889999999963

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.40  E-value=6.4e-13  Score=99.72  Aligned_cols=101  Identities=12%  Similarity=0.048  Sum_probs=67.5

Q ss_pred             ccccccccCCchhHHH----cCCccccce--EEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKDEQE----RGITMKSSS--ISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~----~giti~~~~--~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++..+...+-    ..-|+....  ..+...     +..+.+.+|||||++++......+++.+|++++|+|++
T Consensus        10 ~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~   84 (193)
T cd04118          10 SVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVG-----ERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLT   84 (193)
T ss_pred             CCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEEC-----CEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECC
Confidence            6899999876653221    111222111  223333     45678999999999999988889999999999999998


Q ss_pred             CCCChhHH-HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          76 EGICAQTQ-VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      +..+.... .++..+..  .++|+++|+||+|+..
T Consensus        85 ~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  119 (193)
T cd04118          85 DSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             CHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccc
Confidence            64333221 22233332  3689999999999864

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.40  E-value=7e-13  Score=98.55  Aligned_cols=99  Identities=17%  Similarity=0.075  Sum_probs=65.9

Q ss_pred             ccccccccCCchh-HH-HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKD-EQ-ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~-E~-~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+.. +. ...-|+......+.+.       ..++.+|||||++++...+..+++.+|++|+|+|+++..+
T Consensus        23 ~~GKTsL~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s   95 (175)
T smart00177       23 AAGKTTILYKLKLGESVTTIPTIGFNVETVTYK-------NISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDR   95 (175)
T ss_pred             CCCHHHHHHHHhcCCCCCcCCccccceEEEEEC-------CEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHH
Confidence            6899998766632 11 1111222222223332       6899999999999999999999999999999999985432


Q ss_pred             hhH-HHHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ... ...+..+.    ..++|+++|+||+|+..
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  128 (175)
T smart00177       96 IDEAREELHRMLNEDELRDAVILVFANKQDLPD  128 (175)
T ss_pred             HHHHHHHHHHHhhCHhhcCCcEEEEEeCcCccc
Confidence            211 22222221    23689999999999864

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).

>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=99.40  E-value=2.2e-13  Score=100.09  Aligned_cols=99  Identities=19%  Similarity=0.188  Sum_probs=73.0

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh------HHHHHHHH--HhcCEE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF------SSEVSTAV--RLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~------~~~~~~~l--~~~d~~   68 (161)
                      |+|||++++.+...+.     +|.|++.....+.+.       ..++.|+|+||...+      ...+..++  ...|++
T Consensus        10 NvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~-------~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~i   82 (156)
T PF02421_consen   10 NVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLG-------DQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLI   82 (156)
T ss_dssp             TSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEET-------TEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEE
T ss_pred             CCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEec-------CceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEE
Confidence            8999999988766553     699999877777776       679999999995332      23355555  468999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|++.  -.....+..++...++|+++|+||+|+....
T Consensus        83 i~VvDa~~--l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~  121 (156)
T PF02421_consen   83 IVVVDATN--LERNLYLTLQLLELGIPVVVVLNKMDEAERK  121 (156)
T ss_dssp             EEEEEGGG--HHHHHHHHHHHHHTTSSEEEEEETHHHHHHT
T ss_pred             EEECCCCC--HHHHHHHHHHHHHcCCCEEEEEeCHHHHHHc
Confidence            99999985  2344556677778899999999999998654

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 ....

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.39  E-value=8.1e-13  Score=97.95  Aligned_cols=99  Identities=17%  Similarity=0.070  Sum_probs=66.8

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+....  ...-|+......+.+.       ..++.+|||||++++...+..+++.+|++++|+|+++...
T Consensus        25 ~~GKTsl~~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~   97 (174)
T cd04153          25 NAGKTTILYQFLLGEVVHTSPTIGSNVEEIVYK-------NIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRER   97 (174)
T ss_pred             CCCHHHHHHHHccCCCCCcCCccccceEEEEEC-------CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHH
Confidence            689999875553211  1122333333333333       6899999999999999999999999999999999986432


Q ss_pred             hhH--HHHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          80 AQT--QVALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~--~~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ...  ..+...+..   .++|+++++||+|+..
T Consensus        98 ~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          98 LPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             HHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            211  122222221   3689999999999864

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.

>cd04126 Rab20 Rab20 subfamily

Probab=99.39  E-value=6.4e-13  Score=102.84  Aligned_cols=99  Identities=16%  Similarity=0.064  Sum_probs=67.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++.++....  +..-|+........+.       .+.+.||||||+++|......+++.+|++|+|+|+++..+
T Consensus        10 ~vGKTSLi~r~~~~~f~~~~~Tig~~~~~~~~~-------~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~S   82 (220)
T cd04126          10 NVGKTSLLHRYMERRFKDTVSTVGGAFYLKQWG-------PYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQS   82 (220)
T ss_pred             CCcHHHHHHHHhcCCCCCCCCccceEEEEEEee-------EEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHH
Confidence            689999986664332  1112222222222222       6789999999999999999999999999999999986544


Q ss_pred             hhHHH-HHHHHH---HcCCCcEEEEECCcchh
Q psy2609          80 AQTQV-ALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..... .|..+.   ..++|+|+|+||+|+..
T Consensus        83 f~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~  114 (220)
T cd04126          83 LEELEDRFLGLTDTANEDCLFAVVGNKLDLTE  114 (220)
T ss_pred             HHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            33322 222222   24689999999999965

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.39  E-value=7.3e-13  Score=104.17  Aligned_cols=100  Identities=16%  Similarity=0.111  Sum_probs=67.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     .+..+.+. +.....+.+.     ++.+++.||||||+++|......++..+|++|+|+|+++
T Consensus        10 gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~-----~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~   83 (247)
T cd04143          10 KVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIR-----GEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDN   83 (247)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEEC-----CEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCC
Confidence            589999986663     22222221 2222233333     456899999999999998888888999999999999986


Q ss_pred             CCChhHHH-HHHHHH------------HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAW------------LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~------------~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+.            ..++|+|+|+||+|+..
T Consensus        84 ~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~  127 (247)
T cd04143          84 RESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDF  127 (247)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchh
Confidence            43322221 222221            13689999999999964

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd01892 Miro2 Miro2 subfamily

Probab=99.39  E-value=2.4e-13  Score=100.50  Aligned_cols=101  Identities=14%  Similarity=0.017  Sum_probs=68.2

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++.++.      .+..+.+........+.+.     +..+.+.+|||+|++++......+++.+|++++|+|++
T Consensus        14 ~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~-----~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~   88 (169)
T cd01892          14 GSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVY-----GQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSS   88 (169)
T ss_pred             CCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEEC-----CeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCC
Confidence            589999875553      3333433332222334444     44678999999999999888899999999999999997


Q ss_pred             CCCChhHH-HHHHHHH-HcCCCcEEEEECCcchh
Q psy2609          76 EGICAQTQ-VALKQAW-LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~-~~~~p~ilv~NK~Dl~~  107 (161)
                      +..+.... .++.... ..++|+++|+||+|+..
T Consensus        89 ~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  122 (169)
T cd01892          89 DPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLDE  122 (169)
T ss_pred             CHHHHHHHHHHHHHhccCCCCeEEEEEEcccccc
Confidence            64222211 2222221 23789999999999864

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.38  E-value=1.2e-12  Score=96.59  Aligned_cols=99  Identities=14%  Similarity=0.063  Sum_probs=66.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+....  .+..|+......+.+.       .+++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus         9 ~~GKTsl~~~l~~~~~~~~~~T~~~~~~~~~~~-------~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s   81 (169)
T cd04158           9 GAGKTTILFKLKQDEFMQPIPTIGFNVETVEYK-------NLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDR   81 (169)
T ss_pred             CCCHHHHHHHHhcCCCCCcCCcCceeEEEEEEC-------CEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHH
Confidence            689999976654321  1122332222333333       7899999999999999999999999999999999985422


Q ss_pred             hhH-HHHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ... ...+..+.    ..+.|+++|+||+|+..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  114 (169)
T cd04158          82 VSEAHSELAKLLTEKELRDALLLIFANKQDVAG  114 (169)
T ss_pred             HHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence            211 11222221    13589999999999864

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.38  E-value=1.4e-12  Score=94.75  Aligned_cols=101  Identities=19%  Similarity=0.072  Sum_probs=67.6

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+..........+.+.     +...++.+|||||++++......+++.+|++++|+|+++
T Consensus        11 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   85 (163)
T cd01860          11 SVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLD-----DTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITS   85 (163)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcC
Confidence            68999998544322     22222222222334444     447889999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+... ..++..+..   .++|+++++||+|+..
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~  120 (163)
T cd01860          86 EESFEKAKSWVKELQRNASPNIIIALVGNKADLES  120 (163)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            432222 222222222   3588999999999874

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.37  E-value=1.5e-12  Score=110.16  Aligned_cols=98  Identities=24%  Similarity=0.238  Sum_probs=73.1

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH--------HHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS--------EVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~--------~~~~~l~~~d~   67 (161)
                      |+|||++++.+..+      ..+|.|.+.....+.+.       ++.+.+|||||+.++..        .+..+++.+|+
T Consensus       213 nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~-------g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~  285 (442)
T TIGR00450       213 NVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELN-------GILIKLLDTAGIREHADFVERLGIEKSFKAIKQADL  285 (442)
T ss_pred             CCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEEC-------CEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCE
Confidence            79999998877543      24577777665566665       67899999999865432        24578899999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|++.+.+.... ++..+...++|+++|+||+|+..
T Consensus       286 il~V~D~s~~~s~~~~-~l~~~~~~~~piIlV~NK~Dl~~  324 (442)
T TIGR00450       286 VIYVLDASQPLTKDDF-LIIDLNKSKKPFILVLNKIDLKI  324 (442)
T ss_pred             EEEEEECCCCCChhHH-HHHHHhhCCCCEEEEEECccCCC
Confidence            9999999876655444 44445456899999999999864

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.

>KOG0394|consensus

Probab=99.36  E-value=1.9e-13  Score=101.72  Aligned_cols=102  Identities=19%  Similarity=0.089  Sum_probs=73.2

Q ss_pred             cccccccCCch---hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           3 CMVSSYMDSRK---DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         3 ~g~~~~~D~~~---~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      .||+.+++.+.   -++....||.....+..+..+   ++.+.++||||+|+|||.++-...|++||++++|+|....-+
T Consensus        20 VGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd---~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~S   96 (210)
T KOG0394|consen   20 VGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVD---DRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKS   96 (210)
T ss_pred             ccHHHHHHHHHHHHHHHHhccccchhheeeEEEEc---CeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhh
Confidence            36777765442   334455566655555555443   678899999999999999999999999999999999985444


Q ss_pred             hhHHHHH-----HHHH---HcCCCcEEEEECCcchh
Q psy2609          80 AQTQVAL-----KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~-----~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ......|     .+..   ....|.||++||+|+..
T Consensus        97 fe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~  132 (210)
T KOG0394|consen   97 FENLENWRKEFLIQASPQDPETFPFVILGNKIDVDG  132 (210)
T ss_pred             hccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCC
Confidence            4443333     3322   13678999999999965

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.36  E-value=1.5e-12  Score=95.15  Aligned_cols=101  Identities=19%  Similarity=0.178  Sum_probs=65.5

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-hHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-FSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++..+-     .+..+... ......+.+.     ++.+++.+|||||+++ +......+++.+|++++|+|++
T Consensus         9 ~~GKtsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~   82 (165)
T cd04146           9 GVGKSALVVRFLTKRFIGEYDPNLE-SLYSRQVTID-----GEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSIT   82 (165)
T ss_pred             CCcHHHHHHHHHhCccccccCCChH-HhceEEEEEC-----CEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECC
Confidence            589999985542     23333221 1111223333     4467899999999985 3556778899999999999998


Q ss_pred             CCCChhHHHHH-HHHH-----HcCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQVAL-KQAW-----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~~~~-~~~~-----~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+......| ..+.     ..++|+++|+||+|+...
T Consensus        83 ~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  121 (165)
T cd04146          83 DRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHY  121 (165)
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHh
Confidence            65443322222 2222     237999999999998643

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.36  E-value=1.2e-12  Score=110.86  Aligned_cols=97  Identities=23%  Similarity=0.234  Sum_probs=72.9

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH--------HHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS--------EVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~--------~~~~~l~~~d~   67 (161)
                      |||||++++.+..+      ..+|.|.+.....+.+.       +..+.+|||||++++..        .+..+++.+|+
T Consensus       225 nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~-------g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~  297 (449)
T PRK05291        225 NVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLD-------GIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADL  297 (449)
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEEC-------CeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCE
Confidence            79999998877543      24677777666666665       67899999999875432        24567889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|++.+........+..  ..++|+++|+||+|+..
T Consensus       298 il~VvD~s~~~s~~~~~~l~~--~~~~piiiV~NK~DL~~  335 (449)
T PRK05291        298 VLLVLDASEPLTEEDDEILEE--LKDKPVIVVLNKADLTG  335 (449)
T ss_pred             EEEEecCCCCCChhHHHHHHh--cCCCCcEEEEEhhhccc
Confidence            999999987766555444443  45789999999999964

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.35  E-value=3.7e-12  Score=97.22  Aligned_cols=105  Identities=15%  Similarity=0.205  Sum_probs=66.6

Q ss_pred             ccccccccCCchhHHHcC-C-ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhc-CEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERG-I-TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC-DGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~g-i-ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~-d~~ilVvd~~~~~   78 (161)
                      .+|||.++..+....-.. . ++......+....   ......+.+||||||.++......+++.+ +++|+|+|+....
T Consensus        10 ~sGKTsL~~~l~~~~~~~t~~s~~~~~~~~~~~~---~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~   86 (203)
T cd04105          10 DSGKTALFTKLTTGKYRSTVTSIEPNVATFILNS---EGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQ   86 (203)
T ss_pred             CCCHHHHHHHHhcCCCCCccCcEeecceEEEeec---CCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccch
Confidence            589999886664432111 1 1111111111110   12356899999999999999999999999 9999999998652


Q ss_pred             Ch--hHHHHHHHH------HHcCCCcEEEEECCcchhhh
Q psy2609          79 CA--QTQVALKQA------WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~--~~~~~~~~~------~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..  .....+..+      ...++|+++|+||+|+....
T Consensus        87 ~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~  125 (203)
T cd04105          87 KNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAK  125 (203)
T ss_pred             hHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccC
Confidence            11  111122111      12489999999999997643

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.35  E-value=1.3e-12  Score=96.02  Aligned_cols=102  Identities=14%  Similarity=0.067  Sum_probs=67.5

Q ss_pred             CccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           1 MLCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         1 ~~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+||||+++..+....     .+.+. ......+.+.     +..+.+.+|||||+++|...+..+++.++++++|+|.+
T Consensus        10 ~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~   83 (168)
T cd04177          10 GGVGKSALTVQFVQNVFIESYDPTIE-DSYRKQVEID-----GRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVT   83 (168)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcch-heEEEEEEEC-----CEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECC
Confidence            3789999976654222     22111 1111222233     44678999999999999999999999999999999998


Q ss_pred             CCCChhHH-----HHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQ-----VALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~-----~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+....     .+.+.....++|+++++||+|+...
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~  121 (168)
T cd04177          84 SEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDD  121 (168)
T ss_pred             CHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhcccc
Confidence            54322222     1222122347999999999998643

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

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.35  E-value=5.7e-12  Score=93.87  Aligned_cols=97  Identities=18%  Similarity=0.217  Sum_probs=68.1

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~~~~~l~~   64 (161)
                      ++|||++++.+....       .+|.|....    .|..      +..+.+|||||+          +.+......+++.
T Consensus        28 ~~GKStlin~l~~~~~~~~~~~~~~~t~~~~----~~~~------~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~   97 (179)
T TIGR03598        28 NVGKSSLINALTNRKKLARTSKTPGRTQLIN----FFEV------NDGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEK   97 (179)
T ss_pred             CCCHHHHHHHHhCCCCcccccCCCCcceEEE----EEEe------CCcEEEEeCCCCccccCChhHHHHHHHHHHHHHHh
Confidence            689999988765432       122332211    1211      126999999995          2355555566664


Q ss_pred             ---cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 ---CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ---~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                         ++++++|+|++.+....+..+++.+...++|+++|+||+|+...
T Consensus        98 ~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~pviiv~nK~D~~~~  144 (179)
T TIGR03598        98 RENLKGVVLLMDIRHPLKELDLEMLEWLRERGIPVLIVLTKADKLKK  144 (179)
T ss_pred             ChhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCCH
Confidence               57999999999888888887778777789999999999999743

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.35  E-value=1.6e-12  Score=94.22  Aligned_cols=100  Identities=16%  Similarity=0.076  Sum_probs=66.3

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     ...+.+. +.......+.     +..+.+.+|||||++++...+..+++.+|++++|+|...
T Consensus        10 ~~GKTsl~~~l~~~~~~~~~~~~~~-~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (164)
T cd04139          10 GVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLD-----GEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITD   83 (164)
T ss_pred             CCCHHHHHHHHHhCCCccccCCcch-hhEEEEEEEC-----CEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCC
Confidence            6899998765532     2222221 1111222222     446789999999999999999999999999999999875


Q ss_pred             CCChhH-HHHHH-HHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQT-QVALK-QAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-~~~~~-~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+... ...+. ...   ..++|+++|+||+|+..
T Consensus        84 ~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~  119 (164)
T cd04139          84 MESFTATAEFREQILRVKDDDNVPLLLVGNKCDLED  119 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccc
Confidence            322111 11212 122   25799999999999965

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.35  E-value=1.7e-12  Score=99.58  Aligned_cols=102  Identities=19%  Similarity=0.101  Sum_probs=67.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..++++.+.....+.+.    .+..+++.+|||||++++......+++.+|++++|+|.++
T Consensus        12 ~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~----~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~   87 (211)
T cd04111          12 TVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIE----PGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITN   87 (211)
T ss_pred             CCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEEC----CCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCC
Confidence            68999998665432     22333333222223222    1446789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+.    ....|+++++||+|+..
T Consensus        88 ~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~  123 (211)
T cd04111          88 RESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLES  123 (211)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccccc
Confidence            43322211 222221    13467789999999865

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.35  E-value=2.7e-12  Score=92.03  Aligned_cols=99  Identities=22%  Similarity=0.190  Sum_probs=69.2

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH--------HHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS--------EVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~--------~~~~~l~~~d~   67 (161)
                      +|||+++++.+....      .++.+.+.....+.+.       ..++.+|||||+.++..        .....+..+|+
T Consensus        11 ~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~   83 (157)
T cd04164          11 NVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG-------GIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADL   83 (157)
T ss_pred             CCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC-------CEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCE
Confidence            689999986664322      3455555444444443       57899999999865432        34567788999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+|++..........+..  ..+.|+++|+||+|+....
T Consensus        84 ~v~v~d~~~~~~~~~~~~~~~--~~~~~vi~v~nK~D~~~~~  123 (157)
T cd04164          84 VLFVIDASRGLDEEDLEILEL--PADKPIIVVLNKSDLLPDS  123 (157)
T ss_pred             EEEEEECCCCCCHHHHHHHHh--hcCCCEEEEEEchhcCCcc
Confidence            999999997655555444433  4679999999999997543

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.

>cd00154 Rab Rab family

Probab=99.35  E-value=3.4e-12  Score=91.16  Aligned_cols=100  Identities=23%  Similarity=0.168  Sum_probs=68.6

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+..+.......+...     +....+.+|||||++++......+++.+|++++|+|+.+
T Consensus        10 ~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~   84 (159)
T cd00154          10 GVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEID-----GKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITN   84 (159)
T ss_pred             CCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEEC-----CEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            589999986553     2223333333333333333     336789999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcch
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~  106 (161)
                      ...... ..+......   .++|+++++||+|+.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  118 (159)
T cd00154          85 RESFENLDKWLKELKEYAPENIPIILVGNKIDLE  118 (159)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc
Confidence            332222 222233333   358999999999996

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.34  E-value=1.1e-12  Score=96.51  Aligned_cols=100  Identities=13%  Similarity=0.004  Sum_probs=67.1

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.. .....+...     +..+.+.+|||||++++......+++.+|++|+|+|.++
T Consensus         8 ~vGKTsli~~~~~~~~~~~~~~~~~~-~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   81 (174)
T smart00174        8 AVGKTCLLISYTTNAFPEDYVPTVFE-NYSADVEVD-----GKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDS   81 (174)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCcEEe-eeeEEEEEC-----CEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCC
Confidence            589999986654322     222111 111122222     446789999999999999888899999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      .-+....  .+...+..  .++|+++|+||+|+..
T Consensus        82 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  116 (174)
T smart00174       82 PASFENVKEKWYPEVKHFCPNTPIILVGTKLDLRE  116 (174)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhh
Confidence            4333222  12222222  3799999999999965

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.34  E-value=3e-12  Score=97.39  Aligned_cols=102  Identities=14%  Similarity=0.043  Sum_probs=65.6

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh--------HHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF--------SSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~--------~~~~~~~l~~~d~~   68 (161)
                      ++|||+++..+     ..+..++++.+.....+.+.     +..+.+.||||||++++        ......+++.+|++
T Consensus        10 ~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~-----~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~i   84 (198)
T cd04142          10 GVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLS-----GRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAF   84 (198)
T ss_pred             CCcHHHHHHHHHcCCCCcccCCccccccceeEEEEC-----CEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEE
Confidence            68999987544     34444444433322334444     44688999999997653        22245568899999


Q ss_pred             EEEEeCCCCCChhHHHHH-HHHH------HcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVAL-KQAW------LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~-~~~~------~~~~p~ilv~NK~Dl~~~  108 (161)
                      |+|+|+++..+......| ..+.      ..++|+++|+||+|+...
T Consensus        85 ilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~  131 (198)
T cd04142          85 ILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRH  131 (198)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccc
Confidence            999999865433322222 2221      246899999999999653

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.34  E-value=3.4e-12  Score=93.39  Aligned_cols=101  Identities=16%  Similarity=0.103  Sum_probs=68.2

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++.++     .++..+++..+.....+...     +..+++.+|||||++++......+++.+|++++|+|.++
T Consensus        10 ~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (161)
T cd04117          10 GVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVD-----GIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISS   84 (161)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCC
Confidence            58999887443     33333444433322333333     446789999999999999999999999999999999986


Q ss_pred             CCChhHHHH-HHHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVA-LKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~-~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+...... +..+.   ..++|+++|+||+|+..
T Consensus        85 ~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~  119 (161)
T cd04117          85 ERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQ  119 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            433222221 12111   13689999999999864

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.34  E-value=2.4e-12  Score=96.41  Aligned_cols=97  Identities=14%  Similarity=0.046  Sum_probs=64.5

Q ss_pred             ccccccccCCchhH----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDE----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+...    ..+  |+......+.+       ..+.+.+|||||++++...+..+++.+|++|+|+|+++.
T Consensus        27 ~vGKTsli~~~~~~~~~~~~~--T~~~~~~~~~~-------~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~   97 (182)
T PTZ00133         27 AAGKTTILYKLKLGEVVTTIP--TIGFNVETVEY-------KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDR   97 (182)
T ss_pred             CCCHHHHHHHHhcCCccccCC--ccccceEEEEE-------CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCH
Confidence            58999887555321    122  22222222222       378999999999999999999999999999999999853


Q ss_pred             CChhH-H-HHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          78 ICAQT-Q-VALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~-~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .+... . .+...+.   ..++|+++|+||+|+..
T Consensus        98 ~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  132 (182)
T PTZ00133         98 ERIGDAREELERMLSEDELRDAVLLVFANKQDLPN  132 (182)
T ss_pred             HHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence            22111 1 1222221   13689999999999864

>cd00879 Sar1 Sar1 subfamily

Probab=99.34  E-value=1.7e-12  Score=97.02  Aligned_cols=99  Identities=19%  Similarity=0.148  Sum_probs=67.1

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+....  ....|+......+.+.       +..+.+|||||++++...+..+++.+|++++|+|+++.-+
T Consensus        29 ~~GKStLi~~l~~~~~~~~~~T~~~~~~~i~~~-------~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s  101 (190)
T cd00879          29 NAGKTTLLHMLKDDRLAQHVPTLHPTSEELTIG-------NIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPER  101 (190)
T ss_pred             CCCHHHHHHHHhcCCCcccCCccCcceEEEEEC-------CEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHH
Confidence            689999986654321  1112333333444444       6789999999999999889999999999999999985422


Q ss_pred             hh-HHHHH-HHH---HHcCCCcEEEEECCcchh
Q psy2609          80 AQ-TQVAL-KQA---WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~-~~~~~-~~~---~~~~~p~ilv~NK~Dl~~  107 (161)
                      .. ....+ ...   ...+.|+++++||+|+..
T Consensus       102 ~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~  134 (190)
T cd00879         102 FQESKEELDSLLSDEELANVPFLILGNKIDLPG  134 (190)
T ss_pred             HHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC
Confidence            11 11122 211   124699999999999864

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.33  E-value=3.6e-12  Score=92.40  Aligned_cols=100  Identities=15%  Similarity=0.062  Sum_probs=65.9

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+.....  ..-|+......+.+      ...+.+.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus         9 ~~GKTsl~~~~~~~~~~~~~~t~~~~~~~~~~------~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~   82 (160)
T cd04156           9 SAGKSTLLYKLKHAELVTTIPTVGFNVEMLQL------EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEAR   82 (160)
T ss_pred             CCCHHHHHHHHhcCCcccccCccCcceEEEEe------CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHH
Confidence            6899999876643321  11122211122222      235789999999999999999999999999999999986432


Q ss_pred             hhH--HHHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          80 AQT--QVALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~--~~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ...  ..+...+.   ..++|+++|+||+|+..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (160)
T cd04156          83 LDESQKELKHILKNEHIKGVPVVLLANKQDLPG  115 (160)
T ss_pred             HHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence            111  11112211   25799999999999853

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.33  E-value=4.3e-12  Score=91.57  Aligned_cols=101  Identities=18%  Similarity=0.103  Sum_probs=67.3

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+-.     ...+.++.......+.+.     +....+.+|||||++++......+++.+|++++|+|+++
T Consensus        10 ~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (162)
T cd04123          10 RVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIG-----GKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITD   84 (162)
T ss_pred             CCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEEC-----CEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCC
Confidence            6899999865432     222222222222223333     345789999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      +........| ..+.   ..++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~  119 (162)
T cd04123          85 ADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLER  119 (162)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            5432222222 1111   23689999999999874

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.33  E-value=1.5e-12  Score=97.82  Aligned_cols=101  Identities=14%  Similarity=0.066  Sum_probs=67.7

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+..     +..+.+..... ..+...     +..+.+.||||||+++|......+++.+|++++|+|.++
T Consensus        10 ~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~-----~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~   83 (189)
T cd04134          10 ACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVD-----GLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDS   83 (189)
T ss_pred             CCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEEC-----CEEEEEEEEECCCChhccccccccccCCCEEEEEEECCC
Confidence            5899999865543     22333222111 112222     446789999999999998888889999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .++..+..  .++|+++|+||+|+...
T Consensus        84 ~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~  119 (189)
T cd04134          84 PDSLENVESKWLGEIREHCPGVKLVLVALKCDLREA  119 (189)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccC
Confidence            5443332  12223322  37899999999999653

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.33  E-value=2.9e-12  Score=105.47  Aligned_cols=99  Identities=24%  Similarity=0.202  Sum_probs=69.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc---------hhhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH---------VDFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~---------~~~~~~~~~~l~~~d~   67 (161)
                      |||||++++.+..+.     .++.|++.....+.+..      +.++.||||||+         +.|.. +...+..||+
T Consensus       199 NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~------~~~i~l~DT~G~~~~l~~~lie~f~~-tle~~~~ADl  271 (351)
T TIGR03156       199 NAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD------GGEVLLTDTVGFIRDLPHELVAAFRA-TLEEVREADL  271 (351)
T ss_pred             CCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC------CceEEEEecCcccccCCHHHHHHHHH-HHHHHHhCCE
Confidence            899999998876542     35777777666665531      458999999998         22332 4456889999


Q ss_pred             EEEEEeCCCCCChhHH----HHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQ----VALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~----~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|++++......    .++..+...++|+++|+||+|+..
T Consensus       272 il~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~  315 (351)
T TIGR03156       272 LLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLD  315 (351)
T ss_pred             EEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCC
Confidence            9999999866543332    222222234789999999999864

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).

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.33  E-value=1e-12  Score=96.31  Aligned_cols=102  Identities=21%  Similarity=0.151  Sum_probs=65.0

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      +||||++++.+..+.     .++.|+......+.+.      ...++.+|||||+.+       +......+++.+|+++
T Consensus         6 ~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~------~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           6 NVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVP------DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCcHHHHHHHHhcCCccccCCCceeecCcceEEEcC------CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            689999998775543     2344554443333332      156899999999733       2234456788899999


Q ss_pred             EEEeCCCCC------ChhHHH-HHHHHH----------HcCCCcEEEEECCcchhhh
Q psy2609          70 IVVDCVEGI------CAQTQV-ALKQAW----------LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        70 lVvd~~~~~------~~~~~~-~~~~~~----------~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|+|+....      ...... +...+.          ..++|+++|+||+|+....
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~  136 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAE  136 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchh
Confidence            999998652      111111 111111          1478999999999997543

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.33  E-value=6.7e-12  Score=94.79  Aligned_cols=95  Identities=20%  Similarity=0.211  Sum_probs=63.5

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCC-----------chhhHHHHHHHHH--
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG-----------HVDFSSEVSTAVR--   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG-----------~~~~~~~~~~~l~--   63 (161)
                      ++|||++++.+..     +..+|+|+...  .+.+.         .+.+|||||           .+++...+..++.  
T Consensus        19 ~~GKSsLin~l~~~~~~~~~~~~~t~~~~--~~~~~---------~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (201)
T PRK04213         19 NVGKSTLVRELTGKKVRVGKRPGVTRKPN--HYDWG---------DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDN   87 (201)
T ss_pred             CCCHHHHHHHHhCCCCccCCCCceeeCce--EEeec---------ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhh
Confidence            7899999866643     23455555422  12111         689999999           4566666666654  


Q ss_pred             --hcCEEEEEEeCCCCC-----------ChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          64 --LCDGTIIVVDCVEGI-----------CAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        64 --~~d~~ilVvd~~~~~-----------~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                        .++++++|+|+....           ...+..++..+...++|+++|+||+|+..
T Consensus        88 ~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~  144 (201)
T PRK04213         88 ADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIK  144 (201)
T ss_pred             hhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccC
Confidence              457899999986421           12334555666667899999999999864

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.32  E-value=9.6e-13  Score=114.81  Aligned_cols=98  Identities=19%  Similarity=0.115  Sum_probs=70.5

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH------HHHHHH--hcCEE
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE------VSTAVR--LCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~------~~~~l~--~~d~~   68 (161)
                      |+|||++++.+..+     ..+|+|++.....+.++       +.++++|||||+.++...      ...++.  .+|++
T Consensus         4 NvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~-------~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvv   76 (591)
T TIGR00437         4 NVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQ-------GEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLV   76 (591)
T ss_pred             CCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEEC-------CeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEE
Confidence            79999998777543     34678887766666665       567999999999876432      333443  68999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|++.. . .......++...++|+++|+||+|+.+.
T Consensus        77 I~VvDat~l-e-r~l~l~~ql~~~~~PiIIVlNK~Dl~~~  114 (591)
T TIGR00437        77 VNVVDASNL-E-RNLYLTLQLLELGIPMILALNLVDEAEK  114 (591)
T ss_pred             EEEecCCcc-h-hhHHHHHHHHhcCCCEEEEEehhHHHHh
Confidence            999999852 2 2233334455678999999999998653

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.32  E-value=4.8e-12  Score=94.74  Aligned_cols=101  Identities=17%  Similarity=0.179  Sum_probs=68.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+.++.+.....+...     ++.+.+.+|||||++++...+...++.+|++++|+|+++
T Consensus        10 ~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~   84 (188)
T cd04125          10 GVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIE-----NKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTD   84 (188)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-----CEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcC
Confidence            58999998655432     22333332222333333     446789999999999999999999999999999999986


Q ss_pred             CCChhHHHH-HHHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVA-LKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~-~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+...... +..+.   ..++|+++|+||+|+..
T Consensus        85 ~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~  119 (188)
T cd04125          85 QESFENLKFWINEINRYARENVIKVIVANKSDLVN  119 (188)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcc
Confidence            433222211 12222   23578999999999874

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.32  E-value=4.2e-12  Score=103.08  Aligned_cols=107  Identities=17%  Similarity=0.116  Sum_probs=69.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCC--------CCCCceeEEEEeCCCchhhHHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNK--------DTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~--------~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~   68 (161)
                      .+|||+++..+..     +..+.+........+.+....        ..++.+.+.||||+|+++|...+..+++.+|++
T Consensus        31 GVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~Adgi  110 (334)
T PLN00023         31 GVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQINGV  110 (334)
T ss_pred             CCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCEE
Confidence            4789998755543     233344333222333443100        113468899999999999999999999999999


Q ss_pred             EEEEeCCCCCChhHHH-HHHHHHH---------------cCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQV-ALKQAWL---------------EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~-~~~~~~~---------------~~~p~ilv~NK~Dl~~~  108 (161)
                      |+|+|.+..-+..... ++..+..               .++|++||+||+||...
T Consensus       111 ILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~  166 (334)
T PLN00023        111 IFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPK  166 (334)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccc
Confidence            9999998643332222 2222222               14789999999999643

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.31  E-value=5.8e-13  Score=95.09  Aligned_cols=89  Identities=16%  Similarity=0.086  Sum_probs=59.2

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch----hhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV----DFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~----~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+..+...    ......+.|.          -.+|||||+.    .+......+++.+|++++|+|++++
T Consensus        10 ~vGKSsL~~~l~~~~~~----~~~t~~~~~~----------~~~iDt~G~~~~~~~~~~~~~~~~~~ad~vilv~d~~~~   75 (142)
T TIGR02528        10 GCGKTTLTQALQGEEIL----YKKTQAVEYN----------DGAIDTPGEYVENRRLYSALIVTAADADVIALVQSATDP   75 (142)
T ss_pred             CCCHHHHHHHHcCCccc----cccceeEEEc----------CeeecCchhhhhhHHHHHHHHHHhhcCCEEEEEecCCCC
Confidence            78999999887654321    0111223333          1689999983    3333344568999999999999877


Q ss_pred             CChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .+.+...+...   ...|+++|+||+|+..
T Consensus        76 ~s~~~~~~~~~---~~~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        76 ESRFPPGFASI---FVKPVIGLVTKIDLAE  102 (142)
T ss_pred             CcCCChhHHHh---ccCCeEEEEEeeccCC
Confidence            76554433322   2459999999999864

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.31  E-value=3.4e-12  Score=94.57  Aligned_cols=100  Identities=20%  Similarity=0.156  Sum_probs=67.7

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++....     .+++. ......+.+.     +..+.+.+|||||+++|......++..++++++|+|.++
T Consensus        11 g~GKTtl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (180)
T cd04137          11 SVGKSSLTVQFVEGHFVESYYPTIE-NTFSKIIRYK-----GQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTS   84 (180)
T ss_pred             CCCHHHHHHHHHhCCCccccCcchh-hhEEEEEEEC-----CEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCC
Confidence            689999987765332     11111 1112233333     346789999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHH----HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ....+.. .++..+    ...++|+++|+||+|+..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  120 (180)
T cd04137          85 RKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHT  120 (180)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhh
Confidence            4432222 122222    224689999999999864

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.30  E-value=2.1e-12  Score=94.35  Aligned_cols=102  Identities=14%  Similarity=0.047  Sum_probs=67.9

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....-     +.+ .+.....+...     +..+.+.+|||||++++.......++.+|++++|+|+++
T Consensus        10 ~~GKSsli~~l~~~~~~~~~~~~~-~~~~~~~~~~~-----~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (171)
T cd00157          10 AVGKTCLLISYTTGKFPTEYVPTV-FDNYSATVTVD-----GKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDS   83 (171)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCce-eeeeEEEEEEC-----CEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCC
Confidence            6899999876654331     111 11111222222     457789999999999888777888899999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+....  .+...+..  .++|+++|+||+|+....
T Consensus        84 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  120 (171)
T cd00157          84 PSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDE  120 (171)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhch
Confidence            4332221  12222222  369999999999997654

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

>KOG0097|consensus

Probab=99.29  E-value=1.9e-12  Score=93.01  Aligned_cols=102  Identities=14%  Similarity=0.105  Sum_probs=68.9

Q ss_pred             CccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           1 MLCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         1 ~~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      |-.||+-++..|.+.+     ...|.+.....-+...     +...++.+|||+|+++|+..++++++++-+++.|+|.+
T Consensus        20 mgvgkscllhqftekkfmadcphtigvefgtriievs-----gqkiklqiwdtagqerfravtrsyyrgaagalmvydit   94 (215)
T KOG0097|consen   20 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-----GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDIT   94 (215)
T ss_pred             ccccHHHHHHHHHHHHHhhcCCcccceecceeEEEec-----CcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEeh
Confidence            4567776665554433     2334444444445555     66899999999999999999999999999999999998


Q ss_pred             CCCChhHHHHH----HHHHHcCCCcEEEEECCcchh
Q psy2609          76 EGICAQTQVAL----KQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~~~~~----~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ....-.....|    +.+...+..+++++||.||..
T Consensus        95 rrstynhlsswl~dar~ltnpnt~i~lignkadle~  130 (215)
T KOG0097|consen   95 RRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLES  130 (215)
T ss_pred             hhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhh
Confidence            54332221111    111223444678999999965

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.29  E-value=3.3e-12  Score=106.46  Aligned_cols=101  Identities=15%  Similarity=0.149  Sum_probs=67.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+..++     .++.|+......+.+.      ...++.|+||||+.+       +......++..+|+++
T Consensus       169 NaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~------~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL  242 (390)
T PRK12298        169 NAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVD------DERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLL  242 (390)
T ss_pred             CCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeC------CCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEE
Confidence            899999998886543     2456666555544443      134699999999753       3334556788999999


Q ss_pred             EEEeCCC----CCChhHHHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVE----GICAQTQVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~----~~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|++.    .+......+.+.+..     .++|+++|+||+|+...
T Consensus       243 ~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~  290 (390)
T PRK12298        243 HLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE  290 (390)
T ss_pred             EEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence            9999872    122222333333333     36899999999998654

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.29  E-value=1.1e-11  Score=88.64  Aligned_cols=98  Identities=15%  Similarity=0.101  Sum_probs=66.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++..+...     ..+++...  ...+.+.       ..++.+|||||++++...+..+++.+|++++|+|++.
T Consensus         9 ~~GKssl~~~l~~~~~~~~~~~t~~~~--~~~~~~~-------~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~   79 (159)
T cd04159           9 NSGKTTLVNVIAGGQFSEDTIPTVGFN--MRKVTKG-------NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAAD   79 (159)
T ss_pred             CCCHHHHHHHHccCCCCcCccCCCCcc--eEEEEEC-------CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCC
Confidence            58999997655433     23333222  2222222       5789999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... ...+..+.    ..++|+++|+||+|+...
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  116 (159)
T cd04159          80 RTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA  116 (159)
T ss_pred             HHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC
Confidence            322111 12222221    247899999999998643

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.

>cd04163 Era Era subfamily

Probab=99.29  E-value=5.1e-12  Score=90.87  Aligned_cols=99  Identities=25%  Similarity=0.254  Sum_probs=66.9

Q ss_pred             ccccccccCCchhHHH------cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQE------RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~------~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      +||||++++.+....-      ...+...  ....+.     .....+.+|||||+..        +.......+..+|+
T Consensus        13 g~GKttl~~~l~~~~~~~~~~~~~~~~~~--~~~~~~-----~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~   85 (168)
T cd04163          13 NVGKSTLLNALVGQKISIVSPKPQTTRNR--IRGIYT-----DDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDL   85 (168)
T ss_pred             CCCHHHHHHHHhCCceEeccCCCCceece--EEEEEE-----cCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCE
Confidence            6899999877654321      1111111  111122     2357899999999753        23345667889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|++.........+.+.+...+.|.++|+||+|+..
T Consensus        86 i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~  125 (168)
T cd04163          86 VLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVK  125 (168)
T ss_pred             EEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhccc
Confidence            9999999977555555666666666799999999999973

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.

>PLN03108 Rab family protein; Provisional

Probab=99.29  E-value=7.7e-12  Score=95.75  Aligned_cols=101  Identities=17%  Similarity=0.125  Sum_probs=68.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+.+..+.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        16 gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~-----~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~   90 (210)
T PLN03108         16 GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITID-----NKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   90 (210)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCc
Confidence            58999998766433     22233322222233343     446789999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... .++..+.   ..++|+++|+||+|+..
T Consensus        91 ~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~  125 (210)
T PLN03108         91 RETFNHLASWLEDARQHANANMTIMLIGNKCDLAH  125 (210)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcc
Confidence            4333322 1222122   23789999999999864

>KOG0088|consensus

Probab=99.28  E-value=3e-13  Score=98.75  Aligned_cols=71  Identities=20%  Similarity=0.140  Sum_probs=56.2

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH----HHHHcCCCcEEEEECCcchhh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK----QAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~----~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +....+.||||+|+++|..+-+.||++++++++|+|.++.-+.+-...|-    .+....+-++||+||+||...
T Consensus        59 d~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEee  133 (218)
T KOG0088|consen   59 DCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEE  133 (218)
T ss_pred             cceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHh
Confidence            55778999999999999999999999999999999999765555544432    222234667899999999653

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.28  E-value=1e-11  Score=90.64  Aligned_cols=100  Identities=22%  Similarity=0.163  Sum_probs=59.3

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh--------HHHHHHHH-HhcCE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF--------SSEVSTAV-RLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~--------~~~~~~~l-~~~d~   67 (161)
                      ++|||++++.+....-     ++.|.......+.+       +..++.||||||+.+.        ......++ ..+|+
T Consensus        10 ~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~-------~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~   82 (168)
T cd01897          10 NVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY-------KYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAA   82 (168)
T ss_pred             CCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc-------CceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCc
Confidence            6899999877654321     12233222222222       2679999999998421        11112222 33689


Q ss_pred             EEEEEeCCCCCC---hhHHHHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGIC---AQTQVALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~---~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++....   .....++..+...  ++|+++|+||+|+...
T Consensus        83 ~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~  128 (168)
T cd01897          83 VLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTF  128 (168)
T ss_pred             EEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCch
Confidence            999999986432   1122333444443  7999999999999654

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.

>cd00880 Era_like Era (E

Probab=99.28  E-value=5.5e-12  Score=89.52  Aligned_cols=102  Identities=23%  Similarity=0.141  Sum_probs=71.7

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-------HHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-------SEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-------~~~~~~l~~~d~~   68 (161)
                      .+|||++++.+-.+.      .++.+.......+.+.      ....+.+|||||+..+.       ..+..+++.+|++
T Consensus         6 gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           6 NAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG------PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec------CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            689999987665432      2233433332222222      15689999999986643       3556688999999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|+..........+.......++|+++|+||+|+....
T Consensus        80 l~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~~  120 (163)
T cd00880          80 LFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPEE  120 (163)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCChh
Confidence            99999998776666554555566799999999999997543

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

>PRK11058 GTPase HflX; Provisional

Probab=99.26  E-value=1e-11  Score=104.58  Aligned_cols=100  Identities=19%  Similarity=0.142  Sum_probs=69.9

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh--------HHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF--------SSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~--------~~~~~~~l~~~d~~   68 (161)
                      |||||++++.+..+.     .++.|++.....+.+..      ...+.+|||||+.+.        ...+...++.+|++
T Consensus       207 NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~------~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlI  280 (426)
T PRK11058        207 NAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD------VGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLL  280 (426)
T ss_pred             CCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCC------CCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEE
Confidence            899999998876543     45788887766666541      237899999998431        12245567889999


Q ss_pred             EEEEeCCCCCChhHH----HHHHHHHHcCCCcEEEEECCcchh
Q psy2609          69 IIVVDCVEGICAQTQ----VALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        69 ilVvd~~~~~~~~~~----~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++|+|+++.......    .++..+...++|+++|+||+|+..
T Consensus       281 L~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        281 LHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLD  323 (426)
T ss_pred             EEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence            999999875433332    223333334799999999999864

>cd00876 Ras Ras family

Probab=99.26  E-value=1.6e-11  Score=88.39  Aligned_cols=101  Identities=21%  Similarity=0.143  Sum_probs=66.3

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+..+.    .+..+.......+.+.     +..+.+.+||+||++++.......++.+|++++|+|.++.
T Consensus         9 ~~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   83 (160)
T cd00876           9 GVGKSAITIQFVKGTFVEEYDPTIEDSYRKTIVVD-----GETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDR   83 (160)
T ss_pred             CCCHHHHHHHHHhCCCCcCcCCChhHeEEEEEEEC-----CEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence            689999986654221    1111112112222222     3467899999999999999999999999999999999853


Q ss_pred             CChhH-HHHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      ..... ..++..+..    .++|+++|+||+|+..
T Consensus        84 ~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  118 (160)
T cd00876          84 ESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLEN  118 (160)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccc
Confidence            32211 222222221    3789999999999875

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.26  E-value=8.1e-12  Score=102.24  Aligned_cols=101  Identities=16%  Similarity=0.065  Sum_probs=67.6

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+...+     .++.|+......+.+.      +..++.+|||||+.+       +......+++.+++++
T Consensus       168 NaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~------~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI  241 (335)
T PRK12299        168 NAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD------DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLL  241 (335)
T ss_pred             CCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC------CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEE
Confidence            899999998775432     2456666555555442      245799999999732       3445566777899999


Q ss_pred             EEEeCCCCCChhHHHHH-HHHHH-----cCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEGICAQTQVAL-KQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~-~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|+++.........| ..+..     .++|+++|+||+|+...
T Consensus       242 ~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~  286 (335)
T PRK12299        242 HLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDE  286 (335)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCc
Confidence            99999854322332222 22322     36899999999998643

>KOG0083|consensus

Probab=99.25  E-value=7.8e-12  Score=89.08  Aligned_cols=70  Identities=19%  Similarity=0.198  Sum_probs=56.1

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH-HHHH---HcCCCcEEEEECCcchh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL-KQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.+++++|||+|+++|++.+..|++.+|+.++++|.....+......| ..+.   +..+.+.+++||||+..
T Consensus        44 ~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~  117 (192)
T KOG0083|consen   44 DKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAH  117 (192)
T ss_pred             CcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccch
Confidence            6789999999999999999999999999999999999866554443322 2222   34577889999999964

>cd01878 HflX HflX subfamily

Probab=99.25  E-value=1.8e-11  Score=92.69  Aligned_cols=101  Identities=27%  Similarity=0.218  Sum_probs=64.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh---------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD---------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~---------~~~~~~~~l~~~d~   67 (161)
                      +||||++++.+....     ..+.|++.....+.+.      ....+.||||||+.+         +.. ....+..+|+
T Consensus        51 g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~------~~~~~~i~Dt~G~~~~~~~~~~~~~~~-~~~~~~~~d~  123 (204)
T cd01878          51 NAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLP------DGREVLLTDTVGFIRDLPHQLVEAFRS-TLEEVAEADL  123 (204)
T ss_pred             CCCHHHHHHHHhcchhccCCccceeccceeEEEEec------CCceEEEeCCCccccCCCHHHHHHHHH-HHHHHhcCCe
Confidence            789999997776543     1234444443334433      134899999999832         222 2334678999


Q ss_pred             EEEEEeCCCCCChhHHH----HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICAQTQV----ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~----~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+|++.+.......    .+..+...++|+++|+||+|+....
T Consensus       124 ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~  169 (204)
T cd01878         124 LLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDE  169 (204)
T ss_pred             EEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChH
Confidence            99999998765443321    2222222468999999999996543

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.

>cd04148 RGK RGK subfamily

Probab=99.25  E-value=7.5e-12  Score=96.68  Aligned_cols=100  Identities=16%  Similarity=0.005  Sum_probs=62.8

Q ss_pred             ccccccccCCch-h-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHH-hcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSRK-D-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR-LCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~~-~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~-~~d~~ilVvd~   74 (161)
                      ++|||+++..+. .     +..+....+.....+.+.     +....+.||||||++.+  ....+++ .+|++++|+|+
T Consensus        10 gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~-----~~~~~l~i~Dt~G~~~~--~~~~~~~~~ad~iilV~d~   82 (221)
T cd04148          10 GVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVD-----GEESTLVVIDHWEQEMW--TEDSCMQYQGDAFVVVYSV   82 (221)
T ss_pred             CCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEEC-----CEEEEEEEEeCCCcchH--HHhHHhhcCCCEEEEEEEC
Confidence            589999987663 2     222222112222334444     44788999999999833  2345566 89999999999


Q ss_pred             CCCCChhH-HHHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          75 VEGICAQT-QVALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        75 ~~~~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      ++..+... ..++..+..    .++|+|+|+||+|+...
T Consensus        83 td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~  121 (221)
T cd04148          83 TDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARS  121 (221)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcccc
Confidence            86533222 222222222    46899999999998653

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.24  E-value=9.4e-12  Score=88.27  Aligned_cols=101  Identities=24%  Similarity=0.215  Sum_probs=70.0

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||++++.     ++.+..++++.+.....+.+.     +..+.+.+|||||+.++.......++.++.++.++|...
T Consensus        11 ~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~   85 (161)
T TIGR00231        11 NVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEED-----GKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVI   85 (161)
T ss_pred             CCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEEC-----CEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEee
Confidence            5789998643     444555666666554445554     234889999999999999888888999999999998764


Q ss_pred             CCC-------hhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GIC-------AQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~-------~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.       .+...+..... .+.|+++++||+|+...
T Consensus        86 ~v~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~  123 (161)
T TIGR00231        86 LVLDVEEILEKQTKEIIHHAE-SNVPIILVGNKIDLRDA  123 (161)
T ss_pred             eehhhhhHhHHHHHHHHHhcc-cCCcEEEEEEcccCCcc
Confidence            421       12222222222 27899999999999653

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.24  E-value=1.4e-11  Score=93.50  Aligned_cols=68  Identities=16%  Similarity=0.059  Sum_probs=50.4

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH--HHHHHHH--cCCCcEEEEECCcchh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV--ALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~--~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      +..+.+.+|||||+++.  ....+++.+|++++|+|.++..+.....  +...+..  .++|+++|+||+||..
T Consensus        63 ~~~v~l~iwDTaG~~~~--~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~  134 (195)
T cd01873          63 GVSVSLRLWDTFGDHDK--DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRY  134 (195)
T ss_pred             CEEEEEEEEeCCCChhh--hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccc
Confidence            56789999999999763  4556889999999999998654443331  2222322  4789999999999864

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.24  E-value=4.9e-12  Score=113.13  Aligned_cols=97  Identities=18%  Similarity=0.102  Sum_probs=71.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH----------HHHHHH--h
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE----------VSTAVR--L   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~----------~~~~l~--~   64 (161)
                      |+|||++++.+...     .-+|+|++.....+.+.       +.++.+|||||+.++...          +..++.  .
T Consensus        13 NvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~~-------~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~   85 (772)
T PRK09554         13 NSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTT-------DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGD   85 (772)
T ss_pred             CCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEcC-------ceEEEEEECCCccccccccccccHHHHHHHHHHhccC
Confidence            89999998777543     34688887766666555       779999999998776421          233433  6


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|++++|+|+++...  ...++.++...++|+++|+||+|+.+
T Consensus        86 aD~vI~VvDat~ler--~l~l~~ql~e~giPvIvVlNK~Dl~~  126 (772)
T PRK09554         86 ADLLINVVDASNLER--NLYLTLQLLELGIPCIVALNMLDIAE  126 (772)
T ss_pred             CCEEEEEecCCcchh--hHHHHHHHHHcCCCEEEEEEchhhhh
Confidence            899999999986432  23445566677999999999999864

>cd04135 Tc10 TC10 subfamily

Probab=99.24  E-value=6.4e-12  Score=92.40  Aligned_cols=101  Identities=16%  Similarity=0.132  Sum_probs=66.6

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+.+. +.....+...     +..+.+.+|||||++++......+++.+|++++|+|.++
T Consensus        10 ~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~   83 (174)
T cd04135          10 AVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVG-----GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN   83 (174)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEEC-----CEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCC
Confidence            58999997554322     222211 1111222233     446778999999999998888889999999999999986


Q ss_pred             CCChhHH--HHHHHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      .-+....  .+...+.  ..++|+++|+||+|+...
T Consensus        84 ~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~  119 (174)
T cd04135          84 PASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDD  119 (174)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcC
Confidence            5433222  1222222  358999999999998643

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.24  E-value=1.2e-11  Score=90.93  Aligned_cols=101  Identities=14%  Similarity=0.023  Sum_probs=65.8

Q ss_pred             ccccccccCCchhHHHc---CCccccc-eEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER---GITMKSS-SISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~---giti~~~-~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....-.   .-|+... ...+.+.     ++.+++.+|||||++++......+++.+|++++|+|++..
T Consensus        11 ~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~   85 (175)
T cd01870          11 ACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVD-----GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP   85 (175)
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccccceEEEEEEC-----CEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCH
Confidence            58999998665543211   1111111 1233333     4467899999999999988887889999999999999853


Q ss_pred             CChhHH-H-HHHHHHH--cCCCcEEEEECCcchh
Q psy2609          78 ICAQTQ-V-ALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~-~-~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      .+.... . +...+..  .++|+++|+||+|+..
T Consensus        86 ~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  119 (175)
T cd01870          86 DSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRN  119 (175)
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCEEEEeeChhccc
Confidence            222221 1 1222222  4789999999999864

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.23  E-value=7.7e-12  Score=91.85  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=61.8

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----hhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----VDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+..+..    .......+.|..     .    .+|||||+    .++...+..+++.+|++++|+|++.+
T Consensus        11 ~~GKstl~~~l~~~~~----~~~~~~~v~~~~-----~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~   77 (158)
T PRK15467         11 GAGKTTLFNALQGNYT----LARKTQAVEFND-----K----GDIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDP   77 (158)
T ss_pred             CCCHHHHHHHHcCCCc----cCccceEEEECC-----C----CcccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCc
Confidence            7899999887765442    112234444541     1    26999997    35566667778999999999999876


Q ss_pred             CChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .+.....++..  ..++|+++++||+|+..
T Consensus        78 ~s~~~~~~~~~--~~~~~ii~v~nK~Dl~~  105 (158)
T PRK15467         78 ESRLPAGLLDI--GVSKRQIAVISKTDMPD  105 (158)
T ss_pred             ccccCHHHHhc--cCCCCeEEEEEccccCc
Confidence            54433333322  24679999999999864

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.22  E-value=2.5e-11  Score=99.15  Aligned_cols=101  Identities=14%  Similarity=0.073  Sum_probs=65.3

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||+++..+...+.     +..|.......+.+.      ...++.+|||||+.+       +.......+..+++++
T Consensus       167 naGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~------~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll  240 (329)
T TIGR02729       167 NAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVD------DGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLL  240 (329)
T ss_pred             CCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeC------CceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEE
Confidence            7999999988764431     345555444444443      137899999999742       3344555667799999


Q ss_pred             EEEeCCCC---CChhH-HHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEG---ICAQT-QVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~---~~~~~-~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|++..   -.... ..+.+.+..     .++|+++|+||+|+...
T Consensus       241 ~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~  288 (329)
T TIGR02729       241 HLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE  288 (329)
T ss_pred             EEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh
Confidence            99999853   11112 222222221     36899999999999654

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.

>KOG0070|consensus

Probab=99.22  E-value=3.1e-11  Score=89.83  Aligned_cols=100  Identities=14%  Similarity=0.030  Sum_probs=71.1

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||+++-+++.-.  ..-=|+..+.-.+.|.       +.++.+||..|+++++..+..|+++++++|+|+|+++...
T Consensus        27 ~AGKTTILykLk~~E~vttvPTiGfnVE~v~yk-------n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~R   99 (181)
T KOG0070|consen   27 AAGKTTILYKLKLGEIVTTVPTIGFNVETVEYK-------NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRER   99 (181)
T ss_pred             CCCceeeeEeeccCCcccCCCccccceeEEEEc-------ceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHH
Confidence            699999986664222  2222333333444555       8899999999999999999999999999999999986432


Q ss_pred             h--hHHHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          80 A--QTQVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~--~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      .  .-.++.+.+..   .+.|+++++||.|++.+
T Consensus       100 i~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a  133 (181)
T KOG0070|consen  100 IEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA  133 (181)
T ss_pred             HHHHHHHHHHHHcCcccCCceEEEEechhhcccc
Confidence            1  11223333322   37899999999998754

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.22  E-value=2.3e-11  Score=91.16  Aligned_cols=97  Identities=18%  Similarity=0.212  Sum_probs=66.3

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~~~~~l~~   64 (161)
                      +||||++++.+....       ..|.|..     +.+.     ....++.||||||+          +++......+++.
T Consensus        34 ~~GKSsli~~l~~~~~~~~~~~~~~~t~~-----~~~~-----~~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~  103 (196)
T PRK00454         34 NVGKSSLINALTNRKNLARTSKTPGRTQL-----INFF-----EVNDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRT  103 (196)
T ss_pred             CCCHHHHHHHHhCCCCcccccCCCCceeE-----EEEE-----ecCCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHh
Confidence            689999987765432       2233322     2222     11368999999995          3455566667766


Q ss_pred             c---CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 C---DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~---d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +   +++++|+|+..+.......+...+...++|+++++||+|+...
T Consensus       104 ~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454        104 RENLKGVVLLIDSRHPLKELDLQMIEWLKEYGIPVLIVLTKADKLKK  150 (196)
T ss_pred             CccceEEEEEEecCCCCCHHHHHHHHHHHHcCCcEEEEEECcccCCH
Confidence            5   5788889988776665555666666678999999999999754

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.21  E-value=2.3e-11  Score=85.12  Aligned_cols=104  Identities=22%  Similarity=0.119  Sum_probs=70.5

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....    .+..|. ...........   .....+.+|||||+..+.......++.+|++++|+|+..+
T Consensus         6 ~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~---~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   81 (157)
T cd00882           6 GVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVD---GKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDR   81 (157)
T ss_pred             CCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEEC---CEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCH
Confidence            689999987664322    122222 22222322211   3367899999999999888888899999999999999875


Q ss_pred             CChhHHHHH-----HHHHHcCCCcEEEEECCcchhhh
Q psy2609          78 ICAQTQVAL-----KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        78 ~~~~~~~~~-----~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ........+     ......++|+++++||+|+....
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~  118 (157)
T cd00882          82 ESFENVKEWLLLILINKEGENIPIILVGNKIDLPEER  118 (157)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCcEEEEEecccccccc
Confidence            544333322     23334689999999999987543

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

>KOG0075|consensus

Probab=99.20  E-value=7e-11  Score=85.35  Aligned_cols=100  Identities=17%  Similarity=-0.005  Sum_probs=68.5

Q ss_pred             ccccccccCCchh-HHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKD-EQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~-E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      |+||+++++.-.. +..+  +-|+.....  .+.     .....+.+||.||+.+|...+..|.++++++++|+|+.+.-
T Consensus        30 ~sGKtt~Vn~ia~g~~~edmiptvGfnmr--k~t-----kgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~  102 (186)
T KOG0075|consen   30 NSGKTTLVNVIARGQYLEDMIPTVGFNMR--KVT-----KGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPD  102 (186)
T ss_pred             cCCcceEEEEEeeccchhhhcccccceeE--Eec-----cCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcc
Confidence            6899999865422 1111  122222222  222     44789999999999999999999999999999999998632


Q ss_pred             --ChhHHHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          79 --CAQTQVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        79 --~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                        +....++...+.+   .++|+++.+||.|++.+
T Consensus       103 k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A  137 (186)
T KOG0075|consen  103 KLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA  137 (186)
T ss_pred             cchhhHHHHHHHhcchhhcCCcEEEecccccCccc
Confidence              2222333333322   48999999999999764

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.20  E-value=5.7e-11  Score=86.23  Aligned_cols=101  Identities=21%  Similarity=0.128  Sum_probs=70.0

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..     ++++..+.+..+.....+...     +..+.+.+||++|++++.......++.+|++|+|+|.++
T Consensus         9 ~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~   83 (162)
T PF00071_consen    9 GVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSID-----GKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTD   83 (162)
T ss_dssp             TSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEET-----TEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTB
T ss_pred             CCCHHHHHHHHHhhcccccccccccccccccccccc-----ccccccccccccccccccccccccccccccccccccccc
Confidence            4789988743     344444444444444444444     568899999999999999999999999999999999985


Q ss_pred             CCChhHHHHH-HHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      .-+......| ..+..   .+.|+++++||.|+..
T Consensus        84 ~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~  118 (162)
T PF00071_consen   84 EESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSD  118 (162)
T ss_dssp             HHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGG
T ss_pred             cccccccccccccccccccccccceeeeccccccc
Confidence            4332222222 22221   2588999999999876

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 ....

>cd04155 Arl3 Arl3 subfamily

Probab=99.19  E-value=4.6e-11  Score=87.73  Aligned_cols=99  Identities=14%  Similarity=0.079  Sum_probs=66.1

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||+++..+.....  ...|.......+.+.       +..+.+|||||+.++...+..+++.+|++++|+|+.+...
T Consensus        24 g~GKStLl~~l~~~~~~~~~~t~g~~~~~i~~~-------~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~   96 (173)
T cd04155          24 NAGKTTILKQLASEDISHITPTQGFNIKTVQSD-------GFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKR   96 (173)
T ss_pred             CCCHHHHHHHHhcCCCcccCCCCCcceEEEEEC-------CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHH
Confidence            6899999877654311  112222222233333       5789999999999998889999999999999999975322


Q ss_pred             hhH-HHHH----HHHHHcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVAL----KQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~----~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ... ...+    ......++|+++++||+|+..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  129 (173)
T cd04155          97 LEEAGAELVELLEEEKLAGVPVLVFANKQDLAT  129 (173)
T ss_pred             HHHHHHHHHHHHhChhhcCCCEEEEEECCCCcc
Confidence            111 1111    111234799999999999865

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.19  E-value=6.8e-11  Score=90.13  Aligned_cols=103  Identities=17%  Similarity=0.130  Sum_probs=69.7

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++.++.     +++.+++..........-.     ....++.+|||+|++++...+..++.+++++++++|...
T Consensus        15 g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~   89 (219)
T COG1100          15 GVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPY-----RRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTL   89 (219)
T ss_pred             CccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeC-----CCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEeccc
Confidence            689999985554     3333344333222222222     226789999999999999999999999999999999985


Q ss_pred             C-CChhH-HHHHHHHHH---cCCCcEEEEECCcchhhh
Q psy2609          77 G-ICAQT-QVALKQAWL---EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~-~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~~  109 (161)
                      . ..... ..+...+..   .+.|+++|+||+|+....
T Consensus        90 ~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~  127 (219)
T COG1100          90 RESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQ  127 (219)
T ss_pred             chhhhHHHHHHHHHHHHhCCCCceEEEEecccccccch
Confidence            2 22222 233333333   258999999999997643

>KOG0073|consensus

Probab=99.18  E-value=7.5e-11  Score=86.43  Aligned_cols=99  Identities=22%  Similarity=0.207  Sum_probs=72.4

Q ss_pred             ccccccccCCchhHHHcCCc--cccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGIT--MKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~git--i~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      |||||+++.++..|...++.  +.....++.+.       .+++++||..|+..+++.+..|+..+|+.|+|+|..+...
T Consensus        26 NsGKTti~~kl~~~~~~~i~pt~gf~Iktl~~~-------~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r   98 (185)
T KOG0073|consen   26 NSGKTTIVKKLLGEDTDTISPTLGFQIKTLEYK-------GYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMR   98 (185)
T ss_pred             CCCchhHHHHhcCCCccccCCccceeeEEEEec-------ceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHH
Confidence            89999999888766643332  22233344444       8999999999999999999999999999999999975443


Q ss_pred             hhH-HHHH----HHHHHcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVAL----KQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~----~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .+. ...+    .--+..+.|++++.||.|+..
T Consensus        99 ~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~  131 (185)
T KOG0073|consen   99 MQECKQELTELLVEERLAGAPLLVLANKQDLPG  131 (185)
T ss_pred             HHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence            222 1122    222235789999999999974

>KOG0081|consensus

Probab=99.18  E-value=1.9e-10  Score=84.23  Aligned_cols=106  Identities=16%  Similarity=0.113  Sum_probs=71.6

Q ss_pred             cccccccC-----CchhHHHcCCccccceEEEEeecCCCC----CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEe
Q psy2609           3 CMVSSYMD-----SRKDEQERGITMKSSSISLYYKDNKDT----PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVD   73 (161)
Q Consensus         3 ~g~~~~~D-----~~~~E~~~giti~~~~~~~~~~~~~~~----~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd   73 (161)
                      .||+.++-     +|....-..+.|+.....+.|+...++    +..+.+.+|||+|+|+|++.+...++.|-++++++|
T Consensus        20 VGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFD   99 (219)
T KOG0081|consen   20 VGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFD   99 (219)
T ss_pred             CCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEe
Confidence            46777763     333334445555655666666644332    234679999999999999999999999999999999


Q ss_pred             CCCCCChhH-HHHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          74 CVEGICAQT-QVALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        74 ~~~~~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .+..-+.-. ..++.++..    .+--+++++||+||...
T Consensus       100 lT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~  139 (219)
T KOG0081|consen  100 LTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQ  139 (219)
T ss_pred             ccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhh
Confidence            985433222 222333332    34457899999999754

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.17  E-value=9.8e-11  Score=89.61  Aligned_cols=101  Identities=16%  Similarity=0.154  Sum_probs=68.6

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .||||+++.++     +.+..+++........+...     ++.+.+.+|||||+++|......+++.++++++|+|.++
T Consensus        19 g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   93 (215)
T PTZ00132         19 GVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTN-----CGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTS   93 (215)
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEEC-----CeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcC
Confidence            58999998543     23333333333222222222     457899999999999998888899999999999999986


Q ss_pred             CCChhHHHHH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+.  ..++|+++++||+|+..
T Consensus        94 ~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~  127 (215)
T PTZ00132         94 RITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKD  127 (215)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECccCcc
Confidence            5544333222 1111  24789999999999854

>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=99.17  E-value=5.9e-11  Score=82.35  Aligned_cols=93  Identities=25%  Similarity=0.234  Sum_probs=65.1

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh---------hHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD---------FSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~---------~~~~~~~~l~~~d   66 (161)
                      +||||++++.+-.+.      .++.|.......+.+.       ...+.|+||||...         ........+..+|
T Consensus         9 ~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~-------~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d   81 (116)
T PF01926_consen    9 NVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYN-------NKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSD   81 (116)
T ss_dssp             TSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEET-------TEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTES
T ss_pred             CCCHHHHHHHHhccccccccccccceeeeeeeeeeec-------eeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCC
Confidence            789999987766432      2455555433344444       66888999999742         2233555567899


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEEC
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNK  102 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK  102 (161)
                      ++++|+|+..........+++.+. .+.|+++|+||
T Consensus        82 ~ii~vv~~~~~~~~~~~~~~~~l~-~~~~~i~v~NK  116 (116)
T PF01926_consen   82 LIIYVVDASNPITEDDKNILRELK-NKKPIILVLNK  116 (116)
T ss_dssp             EEEEEEETTSHSHHHHHHHHHHHH-TTSEEEEEEES
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHh-cCCCEEEEEcC
Confidence            999999987744445566667675 88999999998

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 ....

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.17  E-value=7.7e-11  Score=98.68  Aligned_cols=99  Identities=18%  Similarity=0.172  Sum_probs=80.8

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh--------HHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF--------SSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~--------~~~~~~~l~~~d~   67 (161)
                      ||||+++++.+..+.      -+|.|+|.....+..+       ++.+.++||+|.++-        ...+...+..||.
T Consensus       227 NvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~-------G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADl  299 (454)
T COG0486         227 NVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLN-------GIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADL  299 (454)
T ss_pred             CCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEEC-------CEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCE
Confidence            899999999887665      3699999887777777       899999999998542        2347788899999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++.+....+..+.. ....+.|+++|.||+|+...
T Consensus       300 vL~v~D~~~~~~~~d~~~~~-~~~~~~~~i~v~NK~DL~~~  339 (454)
T COG0486         300 VLFVLDASQPLDKEDLALIE-LLPKKKPIIVVLNKADLVSK  339 (454)
T ss_pred             EEEEEeCCCCCchhhHHHHH-hcccCCCEEEEEechhcccc
Confidence            99999999876666666655 45567899999999999864

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.14  E-value=1.9e-10  Score=87.08  Aligned_cols=98  Identities=17%  Similarity=0.167  Sum_probs=78.6

Q ss_pred             ccccccccCCchh-------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKD-------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~-------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~~~~~l~~   64 (161)
                      |+||+++++.+-.       ...||.|...+..  .+.        -.+.|+|.||+          +.+...+..|++.
T Consensus        34 NVGKSSlIN~l~~~k~LArtSktPGrTq~iNff--~~~--------~~~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~  103 (200)
T COG0218          34 NVGKSSLINALTNQKNLARTSKTPGRTQLINFF--EVD--------DELRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEK  103 (200)
T ss_pred             cccHHHHHHHHhCCcceeecCCCCCccceeEEE--Eec--------CcEEEEeCCCcccccCCHHHHHHHHHHHHHHHhh
Confidence            8999999866643       4578888764433  232        14889999996          4567778888876


Q ss_pred             ---cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 ---CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ---~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                         -.++++++|+..++...+.++.+++...++|+++++||+|..+..
T Consensus       104 R~~L~~vvlliD~r~~~~~~D~em~~~l~~~~i~~~vv~tK~DKi~~~  151 (200)
T COG0218         104 RANLKGVVLLIDARHPPKDLDREMIEFLLELGIPVIVVLTKADKLKKS  151 (200)
T ss_pred             chhheEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEccccCChh
Confidence               358999999999999999999999999999999999999988654

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=99.14  E-value=3.5e-10  Score=92.98  Aligned_cols=102  Identities=25%  Similarity=0.358  Sum_probs=88.7

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCC----------------CCCceeEEEEeCCCchhhHHHHHHHHH--hcCEEE
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKD----------------TPEEYLINLIDSPGHVDFSSEVSTAVR--LCDGTI   69 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~----------------~~~~~~i~iiDTpG~~~~~~~~~~~l~--~~d~~i   69 (161)
                      ++|..++|-++|.|-+.+..-+.|...++                ...+.-+.|+||-|||.|.+.+..++-  ..|..+
T Consensus       152 ~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYgl  231 (527)
T COG5258         152 YLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKAAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGL  231 (527)
T ss_pred             hhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHhHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEE
Confidence            46999999999999999988888875442                112356899999999999999888885  479999


Q ss_pred             EEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          70 IVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++.+++|++..+.+++..+....+|+|++++|+|+...+
T Consensus       232 LvVaAddG~~~~tkEHLgi~~a~~lPviVvvTK~D~~~dd  271 (527)
T COG5258         232 LVVAADDGVTKMTKEHLGIALAMELPVIVVVTKIDMVPDD  271 (527)
T ss_pred             EEEEccCCcchhhhHhhhhhhhhcCCEEEEEEecccCcHH
Confidence            9999999999999999999999999999999999998665

>KOG0074|consensus

Probab=99.13  E-value=5.7e-11  Score=85.34  Aligned_cols=101  Identities=19%  Similarity=0.227  Sum_probs=77.0

Q ss_pred             ccccccccCCchhHHHcCCccccce--EEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSS--ISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~--~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ||||++++..++.|..+-+|.-..+  ..+.+.      +.+++++||..|+...++-+..||.+.|+.|+|+|.++.-.
T Consensus        27 nAGKTT~LKqL~sED~~hltpT~GFn~k~v~~~------g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~kr  100 (185)
T KOG0074|consen   27 NAGKTTFLKQLKSEDPRHLTPTNGFNTKKVEYD------GTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKR  100 (185)
T ss_pred             CCcchhHHHHHccCChhhccccCCcceEEEeec------CcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHh
Confidence            7999999999998887776654333  344444      36999999999999999999999999999999999875432


Q ss_pred             h--hHHHHHH---HHHHcCCCcEEEEECCcchhh
Q psy2609          80 A--QTQVALK---QAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~--~~~~~~~---~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .  ..+++.+   ..+...+|+.++.||.|+..+
T Consensus       101 feE~~~el~ELleeeKl~~vpvlIfankQdllta  134 (185)
T KOG0074|consen  101 FEEISEELVELLEEEKLAEVPVLIFANKQDLLTA  134 (185)
T ss_pred             HHHHHHHHHHHhhhhhhhccceeehhhhhHHHhh
Confidence            2  1122333   333457999999999999754

>PRK09866 hypothetical protein; Provisional

Probab=99.13  E-value=8.1e-11  Score=102.39  Aligned_cols=113  Identities=8%  Similarity=0.053  Sum_probs=81.7

Q ss_pred             ceeEEEEeCCCchh-----hHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC--CCcEEEEECCcchhhhhcC
Q psy2609          40 EYLINLIDSPGHVD-----FSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK--IQPILVLNKIDRLILEMKL  112 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-----~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~--~p~ilv~NK~Dl~~~~~~~  112 (161)
                      ..+++|+||||.+.     +...+..++..+|++++|+|++.+....+..+.+.+...+  .|+++|+||+|+.+.+.. 
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~dreed-  307 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQDRNSD-  307 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCCcccc-
Confidence            57999999999854     3445677899999999999999888888888888777766  499999999998642210 


Q ss_pred             ChHHHHHhH----H----HHHHHHHhhhhhhchhhhhhhhhccCCC-Ccc
Q psy2609         113 SPLDIYVHL----S----QLLEQVNAVMGELFASQVMDETAVKTTA-QDN  153 (161)
Q Consensus       113 ~~~~~~~~l----~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  153 (161)
                      ........+    .    .+.+.+|+++..+++.+.+.+.-.+-+. ++.
T Consensus       308 dkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~~~l~~~  357 (741)
T PRK09866        308 DADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANNGKLPPP  357 (741)
T ss_pred             hHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhCCCCCch
Confidence            011111111    1    2446789999999999998887665444 544

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.12  E-value=1.1e-10  Score=98.31  Aligned_cols=99  Identities=14%  Similarity=0.079  Sum_probs=63.5

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+...+     -++.|+......+.+.      ...++.+|||||+..       +.......+..+++++
T Consensus       168 NaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~------~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI  241 (424)
T PRK12297        168 NVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETD------DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIV  241 (424)
T ss_pred             CCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEe------CCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEE
Confidence            899999998776433     2455555444444433      146899999999742       2233444566699999


Q ss_pred             EEEeCCCC----CChhHHHHHHHHHH-----cCCCcEEEEECCcch
Q psy2609          70 IVVDCVEG----ICAQTQVALKQAWL-----EKIQPILVLNKIDRL  106 (161)
Q Consensus        70 lVvd~~~~----~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~  106 (161)
                      +|+|++..    +......+...+..     .++|.++|+||+|+.
T Consensus       242 ~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~  287 (424)
T PRK12297        242 HVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP  287 (424)
T ss_pred             EEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCc
Confidence            99999742    11222223333332     378999999999984

>KOG0395|consensus

Probab=99.12  E-value=2.5e-10  Score=86.97  Aligned_cols=92  Identities=21%  Similarity=0.213  Sum_probs=69.0

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH-HHH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA-LKQ   88 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~-~~~   88 (161)
                      +.|.+++.+.+. +.-...+...     ++.+.+.|+||+|+++|..+...+++.++++++|++.++..+.+.... +..
T Consensus        26 ~~f~~~y~ptie-d~y~k~~~v~-----~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~   99 (196)
T KOG0395|consen   26 GRFVEDYDPTIE-DSYRKELTVD-----GEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQ   99 (196)
T ss_pred             cccccccCCCcc-ccceEEEEEC-----CEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHH
Confidence            677778777775 2222333334     568899999999999999999999999999999999997655444322 222


Q ss_pred             H----HHcCCCcEEEEECCcchh
Q psy2609          89 A----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        89 ~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      +    ....+|+++|+||+|+..
T Consensus       100 I~r~~~~~~~PivlVGNK~Dl~~  122 (196)
T KOG0395|consen  100 ILRVKGRDDVPIILVGNKCDLER  122 (196)
T ss_pred             HHHhhCcCCCCEEEEEEcccchh
Confidence            2    235689999999999975

>KOG0461|consensus

Probab=99.12  E-value=2.3e-10  Score=93.00  Aligned_cols=103  Identities=26%  Similarity=0.333  Sum_probs=84.3

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCC--CCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNK--DTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~--~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      ...|+.+...+||+|.+.....+.....-  |.++..|+.++|||||....+.+..+....|..++|+|+..|.+.|+.+
T Consensus        34 aAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAE  113 (522)
T KOG0461|consen   34 AAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAE  113 (522)
T ss_pred             hhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccch
Confidence            34699999999999999887776643211  3567789999999999999988888888899999999999999999988


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .+-.-.......++|+||+|....+
T Consensus       114 cLiig~~~c~klvvvinkid~lpE~  138 (522)
T KOG0461|consen  114 CLIIGELLCKKLVVVINKIDVLPEN  138 (522)
T ss_pred             hhhhhhhhccceEEEEeccccccch
Confidence            7765555566778999999986543

>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=99.11  E-value=2.2e-11  Score=84.37  Aligned_cols=98  Identities=19%  Similarity=0.128  Sum_probs=60.2

Q ss_pred             ccccccccCCchhHHHc----CCccccceE---EEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSRKDEQER----GITMKSSSI---SLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~----giti~~~~~---~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      .+|||+++..+..+...    ...+.....   .....     .....+.+||++|++.+.......+..+|++++|+|.
T Consensus         9 g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~   83 (119)
T PF08477_consen    9 GVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVD-----GDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDL   83 (119)
T ss_dssp             TSSHHHHHHHHHHSS--------SSTTSCEEEEEEEET-----TEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEEC
T ss_pred             CCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEec-----CCceEEEEEecCccceecccccchhhcCcEEEEEEcC
Confidence            58999998766543332    111111111   11222     2355699999999998887767779999999999999


Q ss_pred             CCCCChhH-HHH---HHHHHH--cCCCcEEEEECCc
Q psy2609          75 VEGICAQT-QVA---LKQAWL--EKIQPILVLNKID  104 (161)
Q Consensus        75 ~~~~~~~~-~~~---~~~~~~--~~~p~ilv~NK~D  104 (161)
                      ++..+... ..+   +.....  .++|+++|+||.|
T Consensus        84 s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   84 SDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             CGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             CChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            85432222 112   122222  4699999999998

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.

>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=99.11  E-value=1.1e-10  Score=87.74  Aligned_cols=106  Identities=19%  Similarity=0.176  Sum_probs=59.8

Q ss_pred             CccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHH---HHhcCEEEEEEeCCCC
Q psy2609           1 MLCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTA---VRLCDGTIIVVDCVEG   77 (161)
Q Consensus         1 ~~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~---l~~~d~~ilVvd~~~~   77 (161)
                      .+||||.++-.+....... |+-.......+...  ......+.++|+|||.+++......   +..+.++|||+|+...
T Consensus        12 s~SGKTaLf~~L~~~~~~~-T~tS~e~n~~~~~~--~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~   88 (181)
T PF09439_consen   12 SGSGKTALFSQLVNGKTVP-TVTSMENNIAYNVN--NSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTD   88 (181)
T ss_dssp             TTSSHHHHHHHHHHSS----B---SSEEEECCGS--STCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTH
T ss_pred             CCCCHHHHHHHHhcCCcCC-eeccccCCceEEee--cCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccc
Confidence            3689999886665543222 11111333333221  1345689999999999988766665   8889999999999731


Q ss_pred             CC--hhHHHHH-HHH---H--HcCCCcEEEEECCcchhhh
Q psy2609          78 IC--AQTQVAL-KQA---W--LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        78 ~~--~~~~~~~-~~~---~--~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..  ....+++ ..+   .  ..++|++|+.||.|+..+.
T Consensus        89 ~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   89 QKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             hhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            11  1111121 111   1  2478889999999998654

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.

>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=99.09  E-value=2e-11  Score=91.03  Aligned_cols=100  Identities=20%  Similarity=0.186  Sum_probs=68.8

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||+++..+.....  ..-|.......+.+.       ++.+.+||.+|+..+...+..++..+|++|+|+|+.+.-.
T Consensus        24 ~sGKTtll~~l~~~~~~~~~pT~g~~~~~i~~~-------~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~   96 (175)
T PF00025_consen   24 GSGKTTLLNRLKNGEISETIPTIGFNIEEIKYK-------GYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPER   96 (175)
T ss_dssp             TSSHHHHHHHHHSSSEEEEEEESSEEEEEEEET-------TEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGG
T ss_pred             ccchHHHHHHhhhccccccCcccccccceeeeC-------cEEEEEEeccccccccccceeeccccceeEEEEeccccee
Confidence            6899999876653221  111222333344444       7899999999999999999999999999999999985322


Q ss_pred             -hhHHHHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          80 -AQTQVAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 -~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                       ......+ ..+.   ..++|+++++||+|+...
T Consensus        97 l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~  130 (175)
T PF00025_consen   97 LQEAKEELKELLNDPELKDIPILILANKQDLPDA  130 (175)
T ss_dssp             HHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS
T ss_pred             ecccccchhhhcchhhcccceEEEEeccccccCc
Confidence             1112222 2222   247999999999998753

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 ....

>KOG0459|consensus

Probab=99.08  E-value=1.7e-10  Score=95.15  Aligned_cols=114  Identities=19%  Similarity=0.281  Sum_probs=91.5

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------   78 (161)
                      +|.||+..+|++.|-|+......|.-.       ...+++.|+|||..|...+..+..+||.+++|+++..+-       
T Consensus       129 sW~ldtn~EeR~kgKtvEvGrA~FEte-------~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFer  201 (501)
T KOG0459|consen  129 SWALDTNGEERDKGKTVEVGRAYFETE-------NKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEK  201 (501)
T ss_pred             EEEEcCchhhhhccceeeeeeEEEEec-------ceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhccccc
Confidence            688999999999999998777766544       779999999999999999999999999999999996442       


Q ss_pred             ChhHHHHHHHHHHcCCCc-EEEEECCcchhhhhcCC-hHHHHHhHHHHHH
Q psy2609          79 CAQTQVALKQAWLEKIQP-ILVLNKIDRLILEMKLS-PLDIYVHLSQLLE  126 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~~~~~-~~~~~~~l~~~~~  126 (161)
                      ..|++++..+++..++.. |+++||||-+..++... -.+.+.++..++.
T Consensus       202 GgQTREha~Lakt~gv~~lVv~vNKMddPtvnWs~eRy~E~~~k~~~fLr  251 (501)
T KOG0459|consen  202 GGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSNERYEECKEKLQPFLR  251 (501)
T ss_pred             ccchhHHHHHHHhhccceEEEEEEeccCCccCcchhhHHHHHHHHHHHHH
Confidence            357888888888888776 57899999887665322 3445555665555

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.07  E-value=4.8e-10  Score=95.85  Aligned_cols=100  Identities=19%  Similarity=0.140  Sum_probs=65.5

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+...+     .++.|+......+.+.       ..+|.||||||+..       +......++..+|++|
T Consensus       169 NAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~-------~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv  241 (500)
T PRK12296        169 SAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAG-------DTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLV  241 (500)
T ss_pred             CCCHHHHHHHHhcCCccccccCcccccceEEEEEEC-------CeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEE
Confidence            899999998775432     2566666555555554       57899999999632       2233455677899999


Q ss_pred             EEEeCCCC-----CChhHH----HHHHHH----------HHcCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEG-----ICAQTQ----VALKQA----------WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~-----~~~~~~----~~~~~~----------~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|++..     +.....    ++..+.          ...++|.|+|+||+|++..
T Consensus       242 ~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da  299 (500)
T PRK12296        242 HVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDA  299 (500)
T ss_pred             EEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhh
Confidence            99999741     111111    122221          1246899999999999753

>KOG0091|consensus

Probab=99.06  E-value=2.6e-10  Score=83.79  Aligned_cols=101  Identities=15%  Similarity=0.044  Sum_probs=65.5

Q ss_pred             cccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||+.++-.|     ++=..+.+.++.-..-++...    +...++++|||+|+++|++.+.+||+++-++++|+|.++.
T Consensus        19 vgkssll~~ft~gkfaelsdptvgvdffarlie~~p----g~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr   94 (213)
T KOG0091|consen   19 VGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRP----GYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNR   94 (213)
T ss_pred             ccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCC----CcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccch
Confidence            3555554333     333455555553333333332    5578999999999999999999999999999999999854


Q ss_pred             CChhHHHHHH-----HHHHcCCCc-EEEEECCcchh
Q psy2609          78 ICAQTQVALK-----QAWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~~~~-----~~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      -+....+.|-     .......++ .||+.|+||.+
T Consensus        95 ~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~S  130 (213)
T KOG0091|consen   95 ESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQS  130 (213)
T ss_pred             hhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhh
Confidence            4333322221     111123334 58999999975

>cd01882 BMS1 Bms1

Probab=99.06  E-value=1.8e-09  Score=83.78  Aligned_cols=97  Identities=11%  Similarity=0.153  Sum_probs=68.5

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEE-eecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCCh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLY-YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICA   80 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~-~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~   80 (161)
                      ++||+++++.+..+.... ++.....++. +.     ....+++++||||+.   ..+...++.+|++++|+|+..+...
T Consensus        49 ~~GKstl~~~l~~~~~~~-~~~~~~g~i~i~~-----~~~~~i~~vDtPg~~---~~~l~~ak~aDvVllviDa~~~~~~  119 (225)
T cd01882          49 GVGKTTLIKSLVKNYTKQ-NISDIKGPITVVT-----GKKRRLTFIECPNDI---NAMIDIAKVADLVLLLIDASFGFEM  119 (225)
T ss_pred             CCCHHHHHHHHHhhcccC-ccccccccEEEEe-----cCCceEEEEeCCchH---HHHHHHHHhcCEEEEEEecCcCCCH
Confidence            568999886665443221 1111111111 22     236789999999964   4556678999999999999999888


Q ss_pred             hHHHHHHHHHHcCCCcE-EEEECCcchh
Q psy2609          81 QTQVALKQAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        81 ~~~~~~~~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      ++..++..+...++|.+ +|+||+|+..
T Consensus       120 ~~~~i~~~l~~~g~p~vi~VvnK~D~~~  147 (225)
T cd01882         120 ETFEFLNILQVHGFPRVMGVLTHLDLFK  147 (225)
T ss_pred             HHHHHHHHHHHcCCCeEEEEEeccccCC
Confidence            88888888888889965 5999999864

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.05  E-value=5.8e-10  Score=81.75  Aligned_cols=94  Identities=16%  Similarity=0.013  Sum_probs=60.5

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..+.     .+..+  +.......+.+.     +..+.+.+|||+|+++     ..+++.+|++++|+|.++
T Consensus        10 gvGKTsli~~~~~~~f~~~~~~--~~~~~~~~i~~~-----~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~   77 (158)
T cd04103          10 QSGKSALVHRYLTGSYVQLESP--EGGRFKKEVLVD-----GQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLEN   77 (158)
T ss_pred             CCcHHHHHHHHHhCCCCCCCCC--CccceEEEEEEC-----CEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCC
Confidence            478999876542     22211  111111234444     4467899999999975     346788999999999997


Q ss_pred             CCChhHH-HHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.+.. .++..+..    .++|+++|+||+|+..
T Consensus        78 ~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~  113 (158)
T cd04103          78 EASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISE  113 (158)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhh
Confidence            6554442 22233322    3579999999999853

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.

>KOG1144|consensus

Probab=99.03  E-value=6.6e-10  Score=97.29  Aligned_cols=104  Identities=30%  Similarity=0.404  Sum_probs=81.9

Q ss_pred             cccccccCCchhHH-----HcCCccccceEEEEeecCC--------CC---CCceeEEEEeCCCchhhHHHHHHHHHhcC
Q psy2609           3 CMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNK--------DT---PEEYLINLIDSPGHVDFSSEVSTAVRLCD   66 (161)
Q Consensus         3 ~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~--------~~---~~~~~i~iiDTpG~~~~~~~~~~~l~~~d   66 (161)
                      .|||.++|......     .-|+|-.+....|...+-.        ..   .+-=-+.+||||||+.|..+...+...||
T Consensus       486 TGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtnlRsrgsslC~  565 (1064)
T KOG1144|consen  486 TGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTNLRSRGSSLCD  565 (1064)
T ss_pred             ccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhhhhhccccccc
Confidence            58888888876532     3466665554444332100        00   11124899999999999999999999999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+|+|+|..+|+.+++.+.+++++..+.|+|+++||+|+.
T Consensus       566 ~aIlvvdImhGlepqtiESi~lLR~rktpFivALNKiDRL  605 (1064)
T KOG1144|consen  566 LAILVVDIMHGLEPQTIESINLLRMRKTPFIVALNKIDRL  605 (1064)
T ss_pred             eEEEEeehhccCCcchhHHHHHHHhcCCCeEEeehhhhhh
Confidence            9999999999999999999999999999999999999986

>cd04129 Rho2 Rho2 subfamily

Probab=99.00  E-value=6.1e-10  Score=83.44  Aligned_cols=100  Identities=12%  Similarity=0.039  Sum_probs=63.6

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++..+.     .+..+.+.... ...+.+.     +....+.+|||||++++......+++.+|++++|+|.+.
T Consensus        11 g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~   84 (187)
T cd04129          11 ACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVD-----GKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDT   84 (187)
T ss_pred             CCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEEC-----CEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCC
Confidence            479999875553     22222221111 1122233     345789999999998887666677899999999999975


Q ss_pred             CCChhHH--HHHHHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+....  .+...+.  ..++|+++|+||+|+..
T Consensus        85 ~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~  119 (187)
T cd04129          85 PDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQ  119 (187)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhh
Confidence            4332222  1222222  23799999999999854

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).

>KOG0393|consensus

Probab=98.97  E-value=7e-10  Score=84.17  Aligned_cols=101  Identities=13%  Similarity=0.065  Sum_probs=73.7

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||.++     +.|++++.+.+. +.-..++...    +++.+.+.+|||+|+++|.+.....|..+|+++++++...
T Consensus        14 a~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~----dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~   88 (198)
T KOG0393|consen   14 AVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVD----DGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVS   88 (198)
T ss_pred             CcCceEEEEEeccCcCcccccCeEE-ccceEEEEec----CCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCC
Confidence            36777764     788899988886 4444444442    1668899999999999998888889999999999999875


Q ss_pred             CCChhH--HHHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQT--QVALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~--~~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+...  ..++..+..  .++|+|||++|.||..
T Consensus        89 p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~  123 (198)
T KOG0393|consen   89 PESFENVKSKWIPEIKHHCPNVPIILVGTKADLRD  123 (198)
T ss_pred             hhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhh
Confidence            443222  122222222  4799999999999973

>KOG0076|consensus

Probab=98.96  E-value=1.5e-09  Score=80.32  Aligned_cols=100  Identities=15%  Similarity=0.107  Sum_probs=73.4

Q ss_pred             ccccccccCCchhHHHc----------CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEE
Q psy2609           2 LCMVSSYMDSRKDEQER----------GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIV   71 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~----------giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilV   71 (161)
                      ||||++|+...+.....          ..|+..+..++..+       ...+.|||..|++...+.+..||..++++++|
T Consensus        27 nAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~-------~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~v   99 (197)
T KOG0076|consen   27 NAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVC-------NAPLSFWDLGGQESLRSLWKKYYWLAHGIIYV   99 (197)
T ss_pred             cCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeec-------cceeEEEEcCChHHHHHHHHHHHHHhceeEEe
Confidence            79999999777665542          22333333334433       55899999999999999999999999999999


Q ss_pred             EeCCCCCCh-----hHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          72 VDCVEGICA-----QTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        72 vd~~~~~~~-----~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+++.-..     ..+.+...-...++|+++.+||-|+.+.
T Consensus       100 iDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~  141 (197)
T KOG0076|consen  100 IDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA  141 (197)
T ss_pred             ecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh
Confidence            999863221     1123334445579999999999998764

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.95  E-value=6.1e-09  Score=74.96  Aligned_cols=97  Identities=19%  Similarity=0.184  Sum_probs=64.1

Q ss_pred             ccccccccCCchh-------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh----------hHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKD-------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD----------FSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~-------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~----------~~~~~~~~l~~   64 (161)
                      .||||++++.+..       +...+.|...    ..+..      ..++.+|||||+..          +......++..
T Consensus         9 g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~----~~~~~------~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01876           9 NVGKSSLINALTNRKKLARTSKTPGKTQLI----NFFNV------NDKFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLEN   78 (170)
T ss_pred             CCCHHHHHHHHhcCCceeeecCCCCcceeE----EEEEc------cCeEEEecCCCccccccCHHHHHHHHHHHHHHHHh
Confidence            5899999876651       1122222211    11221      22899999999633          44445555554


Q ss_pred             ---cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 ---CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ---~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                         .+++++++|...........+.+++...+.|+++++||+|+...
T Consensus        79 ~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~vi~v~nK~D~~~~  125 (170)
T cd01876          79 RENLKGVVLLIDSRHGPTEIDLEMLDWLEELGIPFLVVLTKADKLKK  125 (170)
T ss_pred             ChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcCCCEEEEEEchhcCCh
Confidence               46889999998766666666677777778999999999998643

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.92  E-value=2.8e-10  Score=82.37  Aligned_cols=88  Identities=22%  Similarity=0.163  Sum_probs=60.5

Q ss_pred             ccccccccCCchhHHH-cCCccccceEEEEeecCCCCCCceeEEEEeCCCc----hhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQE-RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----VDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      -||||+++..+..+.. ...|     ..+.|..          .+|||||-    ..|..........||.+++|.|+++
T Consensus        11 g~GKTTL~q~L~~~~~~~~KT-----q~i~~~~----------~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~   75 (143)
T PF10662_consen   11 GSGKTTLAQALNGEEIRYKKT-----QAIEYYD----------NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATE   75 (143)
T ss_pred             CCCHHHHHHHHcCCCCCcCcc-----ceeEecc----------cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCC
Confidence            3799999877765442 2222     2233431          36999993    4577777888889999999999986


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ......   -......+.|+|-|++|+|+..
T Consensus        76 ~~~~~p---P~fa~~f~~pvIGVITK~Dl~~  103 (143)
T PF10662_consen   76 PRSVFP---PGFASMFNKPVIGVITKIDLPS  103 (143)
T ss_pred             CCccCC---chhhcccCCCEEEEEECccCcc
Confidence            432211   1334456789999999999983

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

>cd01850 CDC_Septin CDC/Septin

Probab=98.92  E-value=4.1e-09  Score=84.18  Aligned_cols=71  Identities=21%  Similarity=0.258  Sum_probs=49.5

Q ss_pred             CCceeEEEEeCCCchhhHH---------------------HHH-----HHHH--hcCEEEEEEeCC-CCCChhHHHHHHH
Q psy2609          38 PEEYLINLIDSPGHVDFSS---------------------EVS-----TAVR--LCDGTIIVVDCV-EGICAQTQVALKQ   88 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~---------------------~~~-----~~l~--~~d~~ilVvd~~-~~~~~~~~~~~~~   88 (161)
                      +...++.+|||||+.++..                     ...     ..+.  .+++++++++.+ .++...+..+++.
T Consensus        60 g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~  139 (276)
T cd01850          60 GVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKR  139 (276)
T ss_pred             CEEEEEEEEecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHH
Confidence            4457899999999644311                     111     1111  267888888877 4677777777777


Q ss_pred             HHHcCCCcEEEEECCcchhhh
Q psy2609          89 AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.. ++|+++|+||+|+...+
T Consensus       140 l~~-~v~vi~VinK~D~l~~~  159 (276)
T cd01850         140 LSK-RVNIIPVIAKADTLTPE  159 (276)
T ss_pred             Hhc-cCCEEEEEECCCcCCHH
Confidence            764 89999999999996543

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.

>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=98.90  E-value=2.1e-09  Score=83.80  Aligned_cols=68  Identities=22%  Similarity=0.277  Sum_probs=48.2

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      ++|||++++.+.....     ++.|.+.....+.+.       +.++.+|||||+.+       +......+++.+|+++
T Consensus        10 ~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~-------~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il   82 (233)
T cd01896          10 SVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYK-------GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLIL   82 (233)
T ss_pred             CCCHHHHHHHHHCCCccccCCCCccccceEEEEEEC-------CeEEEEEECCCcccccccchhHHHHHHHhhccCCEEE
Confidence            6899999877765432     233444444444454       67899999999743       3345677899999999


Q ss_pred             EEEeCCC
Q psy2609          70 IVVDCVE   76 (161)
Q Consensus        70 lVvd~~~   76 (161)
                      +|+|+++
T Consensus        83 ~V~D~t~   89 (233)
T cd01896          83 MVLDATK   89 (233)
T ss_pred             EEecCCc
Confidence            9999874

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.

>KOG0071|consensus

Probab=98.89  E-value=3.2e-09  Score=76.32  Aligned_cols=100  Identities=16%  Similarity=0.046  Sum_probs=71.1

Q ss_pred             ccccccccCCchhHHHcCC--ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGI--TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~gi--ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      .||||+++-+++.++.-..  |+..+.-.+.|.       +.+++.||..|+.+.++.++.|+.++.++|||+|+.+.-.
T Consensus        27 ~aGKTtiLyKLkl~~~~~~ipTvGFnvetVtyk-------N~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr   99 (180)
T KOG0071|consen   27 AAGKTTILYKLKLGQSVTTIPTVGFNVETVTYK-------NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDR   99 (180)
T ss_pred             cCCceehhhHHhcCCCcccccccceeEEEEEee-------eeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhh
Confidence            3899999988887764322  222233344455       7899999999999999999999999999999999875311


Q ss_pred             --hhHHHHHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          80 --AQTQVALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 --~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                        ....++.+.+   ....+|+++..||.|++.+
T Consensus       100 ~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A  133 (180)
T KOG0071|consen  100 IEEARNELHRIINDREMRDAIILILANKQDLPDA  133 (180)
T ss_pred             HHHHHHHHHHHhCCHhhhcceEEEEecCcccccc
Confidence              1111221222   1246888999999999864

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.84  E-value=1.9e-08  Score=76.00  Aligned_cols=99  Identities=17%  Similarity=0.122  Sum_probs=68.4

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh-------HHHHH----HHHH
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-------SSEVS----TAVR   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-------~~~~~----~~l~   63 (161)
                      ++||+++++..-.+.       .++.|.........+.       +.++.+|||||..+.       ...+.    .+..
T Consensus        10 g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~-------~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~   82 (196)
T cd01852          10 GAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWD-------GRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAP   82 (196)
T ss_pred             CCCHHHHHHHhhCCCccccccCCCCcccccceeeEEEC-------CeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCC
Confidence            689999987775443       2366766666666665       679999999997653       11222    2234


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHc-C----CCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLE-K----IQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-~----~p~ilv~NK~Dl~~~  108 (161)
                      +.+++++|+++.. +...+...++.+... +    .+++++++++|....
T Consensus        83 g~~~illVi~~~~-~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~  131 (196)
T cd01852          83 GPHAFLLVVPLGR-FTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEG  131 (196)
T ss_pred             CCEEEEEEEECCC-cCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCC
Confidence            5789999999987 777777776666542 2    577899999997643

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).

>KOG1423|consensus

Probab=98.84  E-value=1.5e-08  Score=81.35  Aligned_cols=107  Identities=22%  Similarity=0.185  Sum_probs=67.9

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch---------h---hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV---------D---FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~---------~---~~~~~~~~l~~~d~~i   69 (161)
                      |+||+++.+.+-.-+-.-++.+..+..-... ...+.+..|+.|.||||.-         .   +....+.++..||+++
T Consensus        82 NvGKStLtN~mig~kv~~vS~K~~TTr~~il-gi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vv  160 (379)
T KOG1423|consen   82 NVGKSTLTNQMIGQKVSAVSRKVHTTRHRIL-GIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVV  160 (379)
T ss_pred             CcchhhhhhHhhCCccccccccccceeeeee-EEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEE
Confidence            8999999988765554444444332211110 0012458899999999941         1   2335677888999999


Q ss_pred             EEEeCCCCCChhHHHHHHHHHH-cCCCcEEEEECCcchhhh
Q psy2609          70 IVVDCVEGICAQTQVALKQAWL-EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~-~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|+|+...-....-..+..+.. .++|-|+|.||+|.....
T Consensus       161 Vv~Das~tr~~l~p~vl~~l~~ys~ips~lvmnkid~~k~k  201 (379)
T KOG1423|consen  161 VVVDASATRTPLHPRVLHMLEEYSKIPSILVMNKIDKLKQK  201 (379)
T ss_pred             EEEeccCCcCccChHHHHHHHHHhcCCceeeccchhcchhh
Confidence            9999984222222223333333 489999999999987543

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.82  E-value=2.6e-08  Score=80.46  Aligned_cols=102  Identities=24%  Similarity=0.183  Sum_probs=63.2

Q ss_pred             ccccccccCCch---hHH-HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHh-cCEE
Q psy2609           2 LCMVSSYMDSRK---DEQ-ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRL-CDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~---~E~-~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~-~d~~   68 (161)
                      |.||++++....   .|- .+-.|  ++.+++.+..    .+..++++|||||.-+        ...++..+++. .+++
T Consensus       178 NVGKSSlv~~lT~AkpEvA~YPFT--TK~i~vGhfe----~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~I  251 (346)
T COG1084         178 NVGKSSLVRKLTTAKPEVAPYPFT--TKGIHVGHFE----RGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVI  251 (346)
T ss_pred             CCcHHHHHHHHhcCCCccCCCCcc--ccceeEeeee----cCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeE
Confidence            789999975542   222 22222  3345555542    3356999999999632        34456677765 6788


Q ss_pred             EEEEeCCCCC--ChhH-HHHHHHH-HHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGI--CAQT-QVALKQA-WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~--~~~~-~~~~~~~-~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|++|.+...  +... ..++..+ ...+.|+++|+||+|....+
T Consensus       252 lF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~~~~e  296 (346)
T COG1084         252 LFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDIADEE  296 (346)
T ss_pred             EEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEecccccchh
Confidence            9999998533  2222 2223333 34578999999999987543

>KOG0090|consensus

Probab=98.81  E-value=5.8e-08  Score=74.25  Aligned_cols=102  Identities=13%  Similarity=0.141  Sum_probs=64.6

Q ss_pred             CccccccccCCchh-HHHcCC-ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHH---hcCEEEEEEeCC
Q psy2609           1 MLCMVSSYMDSRKD-EQERGI-TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR---LCDGTIIVVDCV   75 (161)
Q Consensus         1 ~~~g~~~~~D~~~~-E~~~gi-ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~---~~d~~ilVvd~~   75 (161)
                      |++|||.++=.+.. +....+ ++..+...+.++       +....++|-|||.+.+.....++.   .+-++|||+|+.
T Consensus        47 ~dSGKT~LF~qL~~gs~~~TvtSiepn~a~~r~g-------s~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa  119 (238)
T KOG0090|consen   47 SDSGKTSLFTQLITGSHRGTVTSIEPNEATYRLG-------SENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSA  119 (238)
T ss_pred             CCCCceeeeeehhcCCccCeeeeeccceeeEeec-------CcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEecc
Confidence            57899887644322 222222 222222333333       445899999999999999888888   689999999987


Q ss_pred             CCCC---hhHHHHHHHH-----HHcCCCcEEEEECCcchhhh
Q psy2609          76 EGIC---AQTQVALKQA-----WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        76 ~~~~---~~~~~~~~~~-----~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ....   ...+.+...+     ...++|++++.||.|+..+.
T Consensus       120 ~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAk  161 (238)
T KOG0090|consen  120 TFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAK  161 (238)
T ss_pred             ccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcC
Confidence            4332   1112221211     23467888999999998765

>KOG1143|consensus

Probab=98.76  E-value=2.3e-08  Score=82.33  Aligned_cols=99  Identities=19%  Similarity=0.169  Sum_probs=80.7

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCC--------------CCCceeEEEEeCCCchhhHHHHHHHHHh--cCEEEEEEe
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKD--------------TPEEYLINLIDSPGHVDFSSEVSTAVRL--CDGTIIVVD   73 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~--------------~~~~~~i~iiDTpG~~~~~~~~~~~l~~--~d~~ilVvd   73 (161)
                      =++++|...|.|...+.-.+.|+....              ...++.++|||.+||.+|.+.+..++.+  .+++++|++
T Consensus       204 FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVs  283 (591)
T KOG1143|consen  204 FRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVS  283 (591)
T ss_pred             hcchhhhccCcccccchhcccccccccccchhhcccHHHHHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEE
Confidence            356788888888766555555542210              2234679999999999999998888876  589999999


Q ss_pred             CCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          74 CVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..|+...+++++..+...++|++++++|+|+...
T Consensus       284 A~~Gi~~tTrEHLgl~~AL~iPfFvlvtK~Dl~~~  318 (591)
T KOG1143|consen  284 ADRGITWTTREHLGLIAALNIPFFVLVTKMDLVDR  318 (591)
T ss_pred             cCCCCccccHHHHHHHHHhCCCeEEEEEeeccccc
Confidence            99999999999999999999999999999999865

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.76  E-value=2.9e-08  Score=75.27  Aligned_cols=65  Identities=18%  Similarity=0.075  Sum_probs=46.7

Q ss_pred             eeEEEEeCCCchhhHHHHHH-----HHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          41 YLINLIDSPGHVDFSSEVST-----AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~-----~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.+|||||+.+.......     .+..+|++++|.+  ..+...+..++..+...+.|+++|+||+|+..
T Consensus        52 ~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~--~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~~~  121 (197)
T cd04104          52 PNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISS--TRFSSNDVKLAKAIQCMGKKFYFVRTKVDRDL  121 (197)
T ss_pred             CCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeC--CCCCHHHHHHHHHHHHhCCCEEEEEecccchh
Confidence            47899999998543222222     2556788888754  34566666777777777899999999999954

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

>KOG4252|consensus

Probab=98.73  E-value=4.4e-09  Score=78.48  Aligned_cols=72  Identities=19%  Similarity=0.243  Sum_probs=56.6

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH-HH--HHcCCCcEEEEECCcchhhh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK-QA--WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~-~~--~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++...+.+|||+|+++|-..+..||++|.+.++|++.++..+.....-|+ ..  ....+|.++|-||+|+....
T Consensus        66 ~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDlveds  140 (246)
T KOG4252|consen   66 IEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDLVEDS  140 (246)
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchhhHhh
Confidence            44667889999999999999999999999999999998655443333332 22  22589999999999998654

>KOG1191|consensus

Probab=98.69  E-value=3.4e-08  Score=83.36  Aligned_cols=100  Identities=21%  Similarity=0.135  Sum_probs=78.0

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh---------hHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD---------FSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~---------~~~~~~~~l~~~d   66 (161)
                      |+||+++++.+..|.      .+|.|+|.....+..+       ++.+.++||+|..+         -...+...+..+|
T Consensus       278 NvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~-------G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~ad  350 (531)
T KOG1191|consen  278 NVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVN-------GVPVRLSDTAGIREESNDGIEALGIERARKRIERAD  350 (531)
T ss_pred             CCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecC-------CeEEEEEeccccccccCChhHHHhHHHHHHHHhhcC
Confidence            899999999887665      5799999988888877       88999999999865         1234777888999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHH------------cCCCcEEEEECCcchhh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWL------------EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~------------~~~p~ilv~NK~Dl~~~  108 (161)
                      ++++|+|+......++..+.+.+..            .+.|++++.||.|+...
T Consensus       351 vi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  351 VILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             EEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            9999999976555555554444433            23678999999999754

>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=98.69  E-value=9.5e-08  Score=74.59  Aligned_cols=102  Identities=15%  Similarity=0.151  Sum_probs=59.2

Q ss_pred             ccccccc----cCCch-hHH-HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH-----HHHHHHhcCEEEE
Q psy2609           2 LCMVSSY----MDSRK-DEQ-ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE-----VSTAVRLCDGTII   70 (161)
Q Consensus         2 ~~g~~~~----~D~~~-~E~-~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~-----~~~~l~~~d~~il   70 (161)
                      .+|||.+    ..+++ .|- .-|.|++.....+.+.      ....+++||+||+..+...     ....++.+.++|+
T Consensus         9 ~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~------~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIy   82 (232)
T PF04670_consen    9 RSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFL------SFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIY   82 (232)
T ss_dssp             TSSHHHHHHHHHS---GGGGGG-----SEEEEEEECT------TSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEE
T ss_pred             CCChhhHHHHHHcCCCchhccccCCcCCceEEEEecC------CCcEEEEEEcCCccccccccccccHHHHHhccCEEEE
Confidence            4788874    45553 333 2256776665555543      2569999999999766543     5777899999999


Q ss_pred             EEeCC-CCCChhHHHH---HHHHH--HcCCCcEEEEECCcchhhh
Q psy2609          71 VVDCV-EGICAQTQVA---LKQAW--LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        71 Vvd~~-~~~~~~~~~~---~~~~~--~~~~p~ilv~NK~Dl~~~~  109 (161)
                      |+|+. +.....-...   +..+.  ..++.+.+++.|+|+...+
T Consensus        83 V~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~  127 (232)
T PF04670_consen   83 VFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSED  127 (232)
T ss_dssp             EEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HH
T ss_pred             EEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHH
Confidence            99998 3322222222   22222  2467778999999997654

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>KOG0077|consensus

Probab=98.65  E-value=3.9e-08  Score=72.48  Aligned_cols=100  Identities=17%  Similarity=0.143  Sum_probs=69.2

Q ss_pred             ccccccccCCchhHHHcCCcc---ccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGITM---KSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti---~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      |||||+++.-++.++- +..+   ....-.+...       +.+++-+|..||..-...+..++..+|++++++|+.+..
T Consensus        30 NAGKTTLLHMLKdDrl-~qhvPTlHPTSE~l~Ig-------~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~e  101 (193)
T KOG0077|consen   30 NAGKTTLLHMLKDDRL-GQHVPTLHPTSEELSIG-------GMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQE  101 (193)
T ss_pred             CCchhhHHHHHccccc-cccCCCcCCChHHheec-------CceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHH
Confidence            8999999977776662 1111   1111112222       678999999999999999999999999999999997543


Q ss_pred             ChhHH-HH----HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          79 CAQTQ-VA----LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~~~~-~~----~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+.. ..    +....-.++|+++.+||+|.+.+-
T Consensus       102 r~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~  137 (193)
T KOG0077|consen  102 RFAESKKELDALLSDESLATVPFLILGNKIDIPYAA  137 (193)
T ss_pred             HhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc
Confidence            32221 11    111223589999999999997643

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=98.64  E-value=3.8e-08  Score=85.87  Aligned_cols=99  Identities=21%  Similarity=0.183  Sum_probs=74.4

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh------HHHHHHHHH--hcCEE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF------SSEVSTAVR--LCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~------~~~~~~~l~--~~d~~   68 (161)
                      |+|||++++.+...+.     +|+|++.+...+.+.       ++.+.++|.||...+      ...++.++.  ..|++
T Consensus        13 NvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~-------~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~i   85 (653)
T COG0370          13 NVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYK-------GHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLI   85 (653)
T ss_pred             CccHHHHHHHHhccCceecCCCCeeEEEEEEEEEec-------CceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEE
Confidence            8899999988876665     599999998888888       668999999996443      223556664  36999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +-|+|+++-  .......-++...++|++++.|++|.....
T Consensus        86 vnVvDAtnL--eRnLyltlQLlE~g~p~ilaLNm~D~A~~~  124 (653)
T COG0370          86 VNVVDATNL--ERNLYLTLQLLELGIPMILALNMIDEAKKR  124 (653)
T ss_pred             EEEcccchH--HHHHHHHHHHHHcCCCeEEEeccHhhHHhc
Confidence            999999841  112223334566799999999999997653

>KOG0466|consensus

Probab=98.59  E-value=1.5e-07  Score=75.76  Aligned_cols=132  Identities=20%  Similarity=0.250  Sum_probs=93.3

Q ss_pred             CCchhHHHcCCccccceEEEE-eecCCC-------------------------CCCc----eeEEEEeCCCchhhHHHHH
Q psy2609          10 DSRKDEQERGITMKSSSISLY-YKDNKD-------------------------TPEE----YLINLIDSPGHVDFSSEVS   59 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~-~~~~~~-------------------------~~~~----~~i~iiDTpG~~~~~~~~~   59 (161)
                      =+|+.|.+|.+|++..+..-. |+-.++                         ...+    ..+.|+|+|||.-....+.
T Consensus        64 vrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g~~~~~klvRHVSfVDCPGHDiLMaTML  143 (466)
T KOG0466|consen   64 VRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPGCEGKMKLVRHVSFVDCPGHDILMATML  143 (466)
T ss_pred             EEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCCCCCceEEEEEEEeccCCchHHHHHHHh
Confidence            368899999999987665433 211110                         0111    3689999999998888999


Q ss_pred             HHHHhcCEEEEEEeCCCC-CChhHHHHHHHHHHcCCC-cEEEEECCcchhhhhcCChHHHHHhHHHHH--------HHHH
Q psy2609          60 TAVRLCDGTIIVVDCVEG-ICAQTQVALKQAWLEKIQ-PILVLNKIDRLILEMKLSPLDIYVHLSQLL--------EQVN  129 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~~~-~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~--------~~~~  129 (161)
                      .+....|++++++.+.+. +++|+.+++....-.+.+ ++++-||+||.+.+   ...+.++++.+|+        ..+|
T Consensus       144 nGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~LkhiiilQNKiDli~e~---~A~eq~e~I~kFi~~t~ae~aPiiP  220 (466)
T KOG0466|consen  144 NGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLIKES---QALEQHEQIQKFIQGTVAEGAPIIP  220 (466)
T ss_pred             cchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhhhceEEEEechhhhhhHH---HHHHHHHHHHHHHhccccCCCceee
Confidence            998999999999998865 467887776555555555 46789999998766   2455566666665        3367


Q ss_pred             hhhhhhchhhhhhhh
Q psy2609         130 AVMGELFASQVMDET  144 (161)
Q Consensus       130 ~~~~~~~~~~~~~~~  144 (161)
                      +++.-.|+.|.+-+-
T Consensus       221 isAQlkyNId~v~ey  235 (466)
T KOG0466|consen  221 ISAQLKYNIDVVCEY  235 (466)
T ss_pred             ehhhhccChHHHHHH
Confidence            777777777766554

>KOG0096|consensus

Probab=98.59  E-value=5e-08  Score=73.30  Aligned_cols=100  Identities=16%  Similarity=0.133  Sum_probs=69.2

Q ss_pred             ccccccCCc-hhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC-
Q psy2609           4 MVSSYMDSR-KDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC-   79 (161)
Q Consensus         4 g~~~~~D~~-~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~-   79 (161)
                      ||+++..+. ..|-  ..-.|+........+..+   .+.+++..|||+|++.+......++-.+.|+++++|.+.-+. 
T Consensus        22 gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn---~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~   98 (216)
T KOG0096|consen   22 GKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTN---RGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTY   98 (216)
T ss_pred             cccchhhhhhcccceecccCcceeEEeeeeeecc---cCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhh
Confidence            577776433 3333  334455555455555432   335899999999999999999999999999999999984432 


Q ss_pred             ----hhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          80 ----AQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ----~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                          .+.+...+.+  .++|+++|+||.|....
T Consensus        99 ~n~~rwhrd~~rv~--~NiPiv~cGNKvDi~~r  129 (216)
T KOG0096|consen   99 KNVPRWHRDLVRVR--ENIPIVLCGNKVDIKAR  129 (216)
T ss_pred             hcchHHHHHHHHHh--cCCCeeeeccceecccc
Confidence                3333333322  46999999999997543

>COG2262 HflX GTPases [General function prediction only]

Probab=98.58  E-value=7.3e-08  Score=79.89  Aligned_cols=132  Identities=20%  Similarity=0.138  Sum_probs=80.2

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-----h---HHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-----F---SSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-----~---~~~~~~~l~~~d~~   68 (161)
                      ||||+++++.+..+.     .--.|.+.....+.+..      +.++.+.||=|+-+     .   .+.+......+|.+
T Consensus       202 NAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~------g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDll  275 (411)
T COG2262         202 NAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD------GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLL  275 (411)
T ss_pred             cccHHHHHHHHhccCeeccccccccccCceeEEEeCC------CceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEE
Confidence            899999998665333     33456666666665541      57899999999743     1   22344555678999


Q ss_pred             EEEEeCCCCCC-hhH---HHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchhhhhhhh
Q psy2609          69 IIVVDCVEGIC-AQT---QVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDET  144 (161)
Q Consensus        69 ilVvd~~~~~~-~~~---~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  144 (161)
                      +.|+|++++.. .+.   ..++..+....+|+|+|.||+|+..............   .  ..+++++....+.+.+.+.
T Consensus       276 lhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~~~~~~~~~~---~--~~v~iSA~~~~gl~~L~~~  350 (411)
T COG2262         276 LHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEEILAELERGS---P--NPVFISAKTGEGLDLLRER  350 (411)
T ss_pred             EEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchhhhhhhhhcC---C--CeEEEEeccCcCHHHHHHH
Confidence            99999987532 111   2223333335789999999999875442111111111   1  3455666666666555543

>KOG0463|consensus

Probab=98.53  E-value=6.7e-08  Score=79.72  Aligned_cols=123  Identities=20%  Similarity=0.219  Sum_probs=86.3

Q ss_pred             CchhHHHcCCccccceEEEEeecC-----CC-------------CCCceeEEEEeCCCchhhHHHHHHHHHh--cCEEEE
Q psy2609          11 SRKDEQERGITMKSSSISLYYKDN-----KD-------------TPEEYLINLIDSPGHVDFSSEVSTAVRL--CDGTII   70 (161)
Q Consensus        11 ~~~~E~~~giti~~~~~~~~~~~~-----~~-------------~~~~~~i~iiDTpG~~~~~~~~~~~l~~--~d~~il   70 (161)
                      ++++|.+.|.|.....--+.|...     +|             .....-++|||.+|||+|.+.+..++.+  .|..++
T Consensus       171 RHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWvkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~ML  250 (641)
T KOG0463|consen  171 RHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWVKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTML  250 (641)
T ss_pred             hhhhhcccCccccccccceeeccccccccCCCCCCCcccceeeccccceeEEEEeccchhhhhheeeeccccCCCCceEE
Confidence            346788888776544433333211     11             1123468999999999999987777655  799999


Q ss_pred             EEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHH--HHHHHhhhh
Q psy2609          71 VVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQL--LEQVNAVMG  133 (161)
Q Consensus        71 Vvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~--~~~~~~~~~  133 (161)
                      ++.+..|+-..+.+++.+....++|+++|++|+|...++...+.+....++.+.  +..+|++..
T Consensus       251 MiGaNaGIiGmTKEHLgLALaL~VPVfvVVTKIDMCPANiLqEtmKll~rllkS~gcrK~PvlVr  315 (641)
T KOG0463|consen  251 MIGANAGIIGMTKEHLGLALALHVPVFVVVTKIDMCPANILQETMKLLTRLLKSPGCRKLPVLVR  315 (641)
T ss_pred             EecccccceeccHHhhhhhhhhcCcEEEEEEeeccCcHHHHHHHHHHHHHHhcCCCcccCcEEEe
Confidence            999999999999999999999999999999999998776433333333333322  445565443

>PRK13768 GTPase; Provisional

Probab=98.51  E-value=4.5e-07  Score=71.56  Aligned_cols=68  Identities=24%  Similarity=0.200  Sum_probs=47.3

Q ss_pred             eEEEEeCCCchhhH---HHHHHH---HHh--cCEEEEEEeCCCCCChhHHHHHHHHH-----HcCCCcEEEEECCcchhh
Q psy2609          42 LINLIDSPGHVDFS---SEVSTA---VRL--CDGTIIVVDCVEGICAQTQVALKQAW-----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        42 ~i~iiDTpG~~~~~---~~~~~~---l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~-----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.+|||||+.+..   ......   +..  ++++++|+|+..+....+.....++.     ..++|+++|+||+|+.+.
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            68999999986632   233222   333  79999999998766655543332221     468999999999999765


Q ss_pred             h
Q psy2609         109 E  109 (161)
Q Consensus       109 ~  109 (161)
                      +
T Consensus       178 ~  178 (253)
T PRK13768        178 E  178 (253)
T ss_pred             h
Confidence            4

>smart00053 DYNc Dynamin, GTPase

Probab=98.47  E-value=1.4e-06  Score=68.41  Aligned_cols=70  Identities=16%  Similarity=0.086  Sum_probs=55.9

Q ss_pred             ceeEEEEeCCCchh-------------hHHHHHHHHHh-cCEEEEEEeCCCCCChhH-HHHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVD-------------FSSEVSTAVRL-CDGTIIVVDCVEGICAQT-QVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-------------~~~~~~~~l~~-~d~~ilVvd~~~~~~~~~-~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ...+.++||||+.+             +..++..|++. .+.+++|+|++.++..++ ..+.+.+...+.|.++|+||+|
T Consensus       124 ~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D  203 (240)
T smart00053      124 VLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGVITKLD  203 (240)
T ss_pred             CCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEEEECCC
Confidence            35799999999842             33457888884 468999999998887766 5777888888999999999999


Q ss_pred             chhhh
Q psy2609         105 RLILE  109 (161)
Q Consensus       105 l~~~~  109 (161)
                      .....
T Consensus       204 ~~~~~  208 (240)
T smart00053      204 LMDEG  208 (240)
T ss_pred             CCCcc
Confidence            87543

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd01858 NGP_1 NGP-1

Probab=98.44  E-value=8.3e-08  Score=70.07  Aligned_cols=51  Identities=20%  Similarity=0.147  Sum_probs=39.3

Q ss_pred             HHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          58 VSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        58 ~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ...++..+|.+++|+|+..+.......+.+.+..  .++|+|+|+||+|+...
T Consensus         2 ~~~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~   54 (157)
T cd01858           2 LYKVIDSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPT   54 (157)
T ss_pred             hhHhhhhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCCH
Confidence            4578899999999999987665555555555544  34899999999999643

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.42  E-value=2.3e-07  Score=75.61  Aligned_cols=74  Identities=18%  Similarity=0.102  Sum_probs=46.8

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecC----------C------CCC-CceeEEEEeCCCc----hhhH
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDN----------K------DTP-EEYLINLIDSPGH----VDFS   55 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~----------~------~~~-~~~~i~iiDTpG~----~~~~   55 (161)
                      |+|||++++.+.....     +..|++.......+...          +      .++ ....+.+|||||.    +++.
T Consensus         8 nvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv~ga~~~~   87 (318)
T cd01899           8 NAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLVPGAHEGK   87 (318)
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCCCCccchh
Confidence            7999999877654432     24455544332222100          0      001 3468999999997    4443


Q ss_pred             H---HHHHHHHhcCEEEEEEeCC
Q psy2609          56 S---EVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        56 ~---~~~~~l~~~d~~ilVvd~~   75 (161)
                      +   .....++.||++++|+|+.
T Consensus        88 glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          88 GLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             hHHHHHHHHHHHCCEEEEEEeCC
Confidence            3   4556799999999999997

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.

>KOG1489|consensus

Probab=98.39  E-value=1.1e-06  Score=71.09  Aligned_cols=101  Identities=19%  Similarity=0.245  Sum_probs=62.8

Q ss_pred             ccccccccCCchhHHHc-----CCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQER-----GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~-----giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      ||||++++..+..++.+     -.|+......+.|.      +-.++.+-|.||.-+       +.-.-...+..++..+
T Consensus       206 NAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yd------df~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~  279 (366)
T KOG1489|consen  206 NAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYD------DFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLL  279 (366)
T ss_pred             CCcHHHHHHHhhccCCcccccceeeeccccceeecc------ccceeEeccCccccccccccCcccHHHHHHHHhhceEE
Confidence            89999999887665532     11222222222222      234699999999632       2333556677899999


Q ss_pred             EEEeCCCC--CChhH--HHHHHHHH-----HcCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEG--ICAQT--QVALKQAW-----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~--~~~~~--~~~~~~~~-----~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|...+  ..+++  ..++..+.     ..+.|.++|+||+|++..
T Consensus       280 fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea  327 (366)
T KOG1489|consen  280 FVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA  327 (366)
T ss_pred             EEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH
Confidence            99999855  12222  22222222     247899999999999643

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.38  E-value=8.2e-07  Score=63.75  Aligned_cols=52  Identities=21%  Similarity=0.165  Sum_probs=43.1

Q ss_pred             HHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc--CCCcEEEEECCcchh
Q psy2609          56 SEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE--KIQPILVLNKIDRLI  107 (161)
Q Consensus        56 ~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~  107 (161)
                      +.+..++..+|++++|+|+..+...+...+.+++...  ++|+++|+||+|+..
T Consensus         3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~   56 (141)
T cd01857           3 RQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLT   56 (141)
T ss_pred             HHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCC
Confidence            4677889999999999999987776666666666655  899999999999864

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.

>cd00066 G-alpha G protein alpha subunit

Probab=98.36  E-value=1.4e-06  Score=70.93  Aligned_cols=82  Identities=17%  Similarity=0.067  Sum_probs=58.7

Q ss_pred             ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC---------C--hhHHHHHHHH
Q psy2609          21 TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI---------C--AQTQVALKQA   89 (161)
Q Consensus        21 ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~---------~--~~~~~~~~~~   89 (161)
                      |.......+.+.       +..+.+||++|+...++.+..++.+++++++|+|.++--         .  ......+..+
T Consensus       148 T~Gi~~~~f~~~-------~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i  220 (317)
T cd00066         148 TTGIVETKFTIK-------NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSI  220 (317)
T ss_pred             cCCeeEEEEEec-------ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHH
Confidence            334444455555       789999999999999999999999999999999987421         1  1111222222


Q ss_pred             HH----cCCCcEEEEECCcchhhh
Q psy2609          90 WL----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        90 ~~----~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..    .++|++|++||.|+....
T Consensus       221 ~~~~~~~~~pill~~NK~D~f~~k  244 (317)
T cd00066         221 CNSRWFANTSIILFLNKKDLFEEK  244 (317)
T ss_pred             HhCccccCCCEEEEccChHHHHHh
Confidence            22    478999999999987644

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.

>KOG0072|consensus

Probab=98.34  E-value=1.4e-06  Score=63.03  Aligned_cols=70  Identities=16%  Similarity=0.051  Sum_probs=52.4

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC--ChhHHHHHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI--CAQTQVALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~--~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++.++.+||..|+-.+...++.|+.++|.+|+|+|.++..  +....++...+   ...+..++++.||+|...+
T Consensus        60 KNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~  134 (182)
T KOG0072|consen   60 KNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA  134 (182)
T ss_pred             ccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh
Confidence            4789999999999999999999999999999999987532  22222222222   2235667789999998654

>smart00275 G_alpha G protein alpha subunit

Probab=98.28  E-value=4e-06  Score=69.04  Aligned_cols=82  Identities=17%  Similarity=0.112  Sum_probs=59.2

Q ss_pred             ccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC---------C--hhHHHHHHHH
Q psy2609          21 TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI---------C--AQTQVALKQA   89 (161)
Q Consensus        21 ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~---------~--~~~~~~~~~~   89 (161)
                      |.......+.+.       +..+.+||.+|+...++.|..++.+++++++|+|.++--         .  ......+..+
T Consensus       171 T~Gi~~~~f~~~-------~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l  243 (342)
T smart00275      171 TTGIQETAFIVK-------KLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESI  243 (342)
T ss_pred             ccceEEEEEEEC-------CeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHH
Confidence            444444555555       678999999999999999999999999999999988421         1  1112222222


Q ss_pred             HH----cCCCcEEEEECCcchhhh
Q psy2609          90 WL----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        90 ~~----~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..    .++|++|++||.|+....
T Consensus       244 ~~~~~~~~~piil~~NK~D~~~~K  267 (342)
T smart00275      244 CNSRWFANTSIILFLNKIDLFEEK  267 (342)
T ss_pred             HcCccccCCcEEEEEecHHhHHHH
Confidence            21    478999999999998654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1673|consensus

Probab=98.28  E-value=2.4e-06  Score=62.61  Aligned_cols=99  Identities=16%  Similarity=0.158  Sum_probs=70.0

Q ss_pred             ccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           3 CMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         3 ~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .||++++     +.+.+|+.....+..-..++...     +-...+.+||..|+++|....+.+-.++-++++++|.+..
T Consensus        31 iGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~-----~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r  105 (205)
T KOG1673|consen   31 IGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIR-----GTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRR  105 (205)
T ss_pred             cCceeeehhhhcchhHHHHHHHhCccceeeEEEec-----ceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCch
Confidence            4777776     44556665555554444555555     4478999999999999999999999999999999999865


Q ss_pred             CChhHHHHH-HHHHHcCCC--cEEEEECCcch
Q psy2609          78 ICAQTQVAL-KQAWLEKIQ--PILVLNKIDRL  106 (161)
Q Consensus        78 ~~~~~~~~~-~~~~~~~~p--~ilv~NK~Dl~  106 (161)
                      .+-....-| ++++..+..  .|++++|-|+.
T Consensus       106 ~TLnSi~~WY~QAr~~NktAiPilvGTKyD~f  137 (205)
T KOG1673|consen  106 STLNSIKEWYRQARGLNKTAIPILVGTKYDLF  137 (205)
T ss_pred             HHHHHHHHHHHHHhccCCccceEEeccchHhh
Confidence            544333333 444444433  37899999975

>cd01859 MJ1464 MJ1464

Probab=98.19  E-value=4.1e-06  Score=60.86  Aligned_cols=54  Identities=17%  Similarity=0.150  Sum_probs=41.8

Q ss_pred             hHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          54 FSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        54 ~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +.......++.+|++++|+|+.++...+...+...+...++|+++|+||+|+..
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~   55 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADLVP   55 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHhCC
Confidence            345677788889999999999876655555555555556899999999999864

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.

>KOG0052|consensus

Probab=98.17  E-value=6.8e-07  Score=73.77  Aligned_cols=97  Identities=29%  Similarity=0.424  Sum_probs=72.7

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------C
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------I   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~   78 (161)
                      +|++|+++.|+++|++++.....  +.     ...+.++++|.|||.+|...+....+.+|++++.+.+..|       .
T Consensus        54 a~~~dk~~ae~~r~i~I~~~l~~--~~-----t~k~~i~iid~pgh~d~~k~mitg~sqaD~avliva~~~gefEagisk  126 (391)
T KOG0052|consen   54 AWVLDKLKAERERGITIDIALWK--FE-----TSKYYVTIIDAPGHRDFIKNMITGTSQADCAVLIVAAGTGEFEAGISK  126 (391)
T ss_pred             eeeechhhhccccceEEEEEeec--cc-----ceeEEEEEecCCCCCceeeeEEeeEeeeceeEEEEeeeccceeeeccc
Confidence            47899999999999885533222  22     5588999999999999999999999999999998887322       1


Q ss_pred             ChhHHHHHHHHHHcCC-CcEEEEECCcchhhh
Q psy2609          79 CAQTQVALKQAWLEKI-QPILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~~  109 (161)
                      ..|++++.-+....++ ++++.+||+|.....
T Consensus       127 ngqt~ehalla~tlgv~qliv~v~k~D~~~~~  158 (391)
T KOG0052|consen  127 NGQTREHALLAFTLGVKQLIVGVNKMDSTEPP  158 (391)
T ss_pred             cchhhhhhhhhccccceeeeEEeecccccCCC
Confidence            3666666555555554 557889999976543

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.10  E-value=8.5e-06  Score=68.46  Aligned_cols=67  Identities=15%  Similarity=0.217  Sum_probs=51.2

Q ss_pred             CCceeEEEEeCCCchh-------------------------hHHH----HHHHHH-hcCEEEEEE-eCC------CCCCh
Q psy2609          38 PEEYLINLIDSPGHVD-------------------------FSSE----VSTAVR-LCDGTIIVV-DCV------EGICA   80 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~-------------------------~~~~----~~~~l~-~~d~~ilVv-d~~------~~~~~   80 (161)
                      +-..++.++||+|+..                         |...    +...+. .++.+|+|. |++      ++...
T Consensus        88 ~~~~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~  167 (492)
T TIGR02836        88 GTKFKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVE  167 (492)
T ss_pred             CCcccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchH
Confidence            3357899999999732                         1111    566676 789999998 875      34456


Q ss_pred             hHHHHHHHHHHcCCCcEEEEECCc
Q psy2609          81 QTQVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        81 ~~~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ..+..+..++..++|+++++||+|
T Consensus       168 aEe~~i~eLk~~~kPfiivlN~~d  191 (492)
T TIGR02836       168 AEERVIEELKELNKPFIILLNSTH  191 (492)
T ss_pred             HHHHHHHHHHhcCCCEEEEEECcC
Confidence            667778888899999999999999

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.

>KOG2486|consensus

Probab=98.09  E-value=1.2e-05  Score=64.09  Aligned_cols=100  Identities=15%  Similarity=0.077  Sum_probs=71.4

Q ss_pred             ccccccccCCchhHHHcCCccc-----cceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQERGITMK-----SSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~-----~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~~~~~l~~~d   66 (161)
                      |.||+.++|..-.-....-+.+     +..+.....       +..+.++|.||+          +++...+..|+.+-+
T Consensus       146 NVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v-------~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~  218 (320)
T KOG2486|consen  146 NVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV-------GKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERE  218 (320)
T ss_pred             cccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec-------cceEEEEecCCcccccCCccCcchHhHhHHHHHHhhh
Confidence            6788888866543332222211     112222222       458999999994          356777888876644


Q ss_pred             ---EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          67 ---GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        67 ---~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                         .+.+++|+..++.+.+...+.++...++|+.+|.||||....
T Consensus       219 nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  219 NLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKK  263 (320)
T ss_pred             hhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhh
Confidence               677889999999999999999999999999999999998653

>KOG1532|consensus

Probab=98.08  E-value=4.1e-06  Score=66.70  Aligned_cols=86  Identities=24%  Similarity=0.258  Sum_probs=54.4

Q ss_pred             CceeEEEEeCCCchhhH------HHHHHHHHh--cCEEEEEEeCCCCCChhHH-----HHHHHHHHcCCCcEEEEECCcc
Q psy2609          39 EEYLINLIDSPGHVDFS------SEVSTAVRL--CDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~------~~~~~~l~~--~d~~ilVvd~~~~~~~~~~-----~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      +.+++.+|||||+-...      .....++..  --++++|+|.-....+.+.     .....+.+.++|.|+|.||+|+
T Consensus       114 ~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  114 EEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEecccc
Confidence            34789999999985421      122233322  2377789997654444332     2234556789999999999999


Q ss_pred             hhhhhcCChHHHHHhHHHH
Q psy2609         106 LILEMKLSPLDIYVHLSQL  124 (161)
Q Consensus       106 ~~~~~~~~~~~~~~~l~~~  124 (161)
                      .+.++..+.++.+..++..
T Consensus       194 ~d~~fa~eWm~DfE~FqeA  212 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAFQEA  212 (366)
T ss_pred             cccHHHHHHHHHHHHHHHH
Confidence            8877654555555544443

>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=98.07  E-value=1.3e-05  Score=62.74  Aligned_cols=67  Identities=21%  Similarity=0.167  Sum_probs=37.4

Q ss_pred             eEEEEeCCCchhhHHHHHHHH--------HhcCEEEEEEeCCCCCChhHHH-----HHHHHHHcCCCcEEEEECCcchhh
Q psy2609          42 LINLIDSPGHVDFSSEVSTAV--------RLCDGTIIVVDCVEGICAQTQV-----ALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l--------~~~d~~ilVvd~~~~~~~~~~~-----~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.++|||||.++...+...-        ...=++++++|+..-..+....     ......+.++|.|.|+||+|+.+.
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            799999999988655433333        3345889999987433322211     112233468999999999999873

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.06  E-value=4.6e-05  Score=60.12  Aligned_cols=100  Identities=17%  Similarity=0.065  Sum_probs=58.6

Q ss_pred             ccccccccCCchhHHHc------CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH------H----HHHHHHH--
Q psy2609           2 LCMVSSYMDSRKDEQER------GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS------S----EVSTAVR--   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~------giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~------~----~~~~~l~--   63 (161)
                      ++||+++++.+-.+...      +.|.........+.       +.++.+|||||..+..      .    .+..++.  
T Consensus        41 GvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~-------g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~  113 (249)
T cd01853          41 GVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVD-------GFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKK  113 (249)
T ss_pred             CCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEEC-------CeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhcc
Confidence            58999998776655421      23333222222222       6789999999986542      1    1233343  


Q ss_pred             hcCEEEEEEeCCC-CCChhHHHHHHHHHH-cC----CCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVE-GICAQTQVALKQAWL-EK----IQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~-~~~~~~~~~~~~~~~-~~----~p~ilv~NK~Dl~~~  108 (161)
                      ..+++++|...+. .....+..+++.+.. .+    .++++|.||+|....
T Consensus       114 ~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p  164 (249)
T cd01853         114 TPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPP  164 (249)
T ss_pred             CCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCC
Confidence            4678888875553 233444445544433 22    468999999998643

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.02  E-value=1.1e-05  Score=64.35  Aligned_cols=57  Identities=25%  Similarity=0.329  Sum_probs=44.5

Q ss_pred             CCch-hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          49 PGHV-DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        49 pG~~-~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |||. +...+....+..+|++++|+|+..+.......+.+.+  .+.|+|+|+||+|+..
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l--~~kp~IiVlNK~DL~~   62 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRNPMIDEIR--GNKPRLIVLNKADLAD   62 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCChhHHHHH--CCCCEEEEEEccccCC
Confidence            7874 5677899999999999999999876655444444443  3689999999999964

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.

>cd01856 YlqF YlqF

Probab=97.98  E-value=1.4e-05  Score=59.12  Aligned_cols=57  Identities=26%  Similarity=0.290  Sum_probs=43.8

Q ss_pred             CCc-hhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          49 PGH-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        49 pG~-~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ||| .+...++...+..+|.+++|+|+..+.......+...+  .++|+++|+||+|+..
T Consensus         3 ~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~--~~k~~ilVlNK~Dl~~   60 (171)
T cd01856           3 PGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRNPLLEKIL--GNKPRIIVLNKADLAD   60 (171)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCChhhHhHh--cCCCEEEEEehhhcCC
Confidence            665 56778899999999999999999876554444444433  3689999999999964

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.93  E-value=4.1e-06  Score=60.99  Aligned_cols=77  Identities=17%  Similarity=0.003  Sum_probs=44.8

Q ss_pred             CEEEEEEeCCCCCChhHHHHH-HHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchhhhhhh
Q psy2609          66 DGTIIVVDCVEGICAQTQVAL-KQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDE  143 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~-~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  143 (161)
                      |.+++|+|+..+.......+. ..+...++|+|+|+||+|+...+........+.+.. ....+++++....+.+.+.+
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~~~~p~IiVlNK~Dl~~~~~~~~~~~~~~~~~-~~~ii~vSa~~~~gi~~L~~   78 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIKEKGKKLILVLNKADLVPKEVLRKWLAYLRHSY-PTIPFKISATNGQGIEKKES   78 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHhcCCCCEEEEEechhcCCHHHHHHHHHHHHhhC-CceEEEEeccCCcChhhHHH
Confidence            789999999876655544444 344556899999999999964331100111111110 11234566666666666554

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.86  E-value=1e-05  Score=65.71  Aligned_cols=68  Identities=26%  Similarity=0.329  Sum_probs=44.3

Q ss_pred             ccccccccCCchhHH----HcC-CccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ----ERG-ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~g-iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      ++||++++..+..-.    .+- .|......-+.|+       +.+|+++|+||.-.       ..+++.+..+.||.++
T Consensus        73 svGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~-------ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIi  145 (365)
T COG1163          73 SVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYK-------GAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLII  145 (365)
T ss_pred             CccHHHHHHHHhCCCccccccCceecccccceEeec-------CceEEEEcCcccccCcccCCCCcceeeeeeccCCEEE
Confidence            578888876553111    111 1222222334444       78999999999632       2456888899999999


Q ss_pred             EEEeCCC
Q psy2609          70 IVVDCVE   76 (161)
Q Consensus        70 lVvd~~~   76 (161)
                      +|+|+..
T Consensus       146 iVld~~~  152 (365)
T COG1163         146 IVLDVFE  152 (365)
T ss_pred             EEEecCC
Confidence            9999873

>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=97.85  E-value=3.6e-05  Score=56.14  Aligned_cols=64  Identities=28%  Similarity=0.304  Sum_probs=46.0

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH-HHcCCCcEEEEECC
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA-WLEKIQPILVLNKI  103 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~  103 (161)
                      ...+.|+||||...    ....+..++..+|++|+|+++.......+...+... ......+++|.||+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nk~  168 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLNKA  168 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE-G
T ss_pred             ccceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            35699999999853    235688889999999999999987765555444433 33445567888984

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 ....

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.84  E-value=2.6e-05  Score=62.60  Aligned_cols=57  Identities=26%  Similarity=0.322  Sum_probs=44.1

Q ss_pred             CCch-hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          49 PGHV-DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        49 pG~~-~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |||. +-..+....+..+|++++|+|+..+.......+.....  +.|+++|+||+|+..
T Consensus         8 pgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~~--~kp~iiVlNK~DL~~   65 (287)
T PRK09563          8 PGHMAKARREIKENLKLVDVVIEVLDARIPLSSENPMIDKIIG--NKPRLLILNKSDLAD   65 (287)
T ss_pred             HHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCChhHHHHhC--CCCEEEEEEchhcCC
Confidence            7874 45677899999999999999998766554444444332  789999999999964

>cd01855 YqeH YqeH

Probab=97.84  E-value=2.2e-05  Score=58.85  Aligned_cols=57  Identities=23%  Similarity=0.018  Sum_probs=42.2

Q ss_pred             CCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          49 PGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        49 pG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |.+..|...+..+++.+|++++|+|+.+....+...+..  ...++|+++|+||+|+..
T Consensus        19 ~~~~~~~~~l~~~~~~ad~il~VvD~~~~~~~~~~~l~~--~~~~~~~ilV~NK~Dl~~   75 (190)
T cd01855          19 PDEDFILNLLSSISPKKALVVHVVDIFDFPGSLIPRLRL--FGGNNPVILVGNKIDLLP   75 (190)
T ss_pred             ChHHHHHHHHHhcccCCcEEEEEEECccCCCccchhHHH--hcCCCcEEEEEEchhcCC
Confidence            444446888999999999999999998654433333322  235789999999999964

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.

>KOG4423|consensus

Probab=97.81  E-value=6.8e-07  Score=67.20  Aligned_cols=92  Identities=18%  Similarity=0.174  Sum_probs=63.9

Q ss_pred             hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHH--
Q psy2609          13 KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW--   90 (161)
Q Consensus        13 ~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~--   90 (161)
                      ..-++..|.++....-+.|+.    ..-+++.+||.+|+++|..++.-+++.+.++.+|+|.+......-...|.+-.  
T Consensus        51 s~~yRAtIgvdfalkVl~wdd----~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdlds  126 (229)
T KOG4423|consen   51 SYHYRATIGVDFALKVLQWDD----KTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDS  126 (229)
T ss_pred             HHHHHHHHhHHHHHHHhccCh----HHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccC
Confidence            334444555555555555652    22467999999999999999999999999999999998765443333332111  


Q ss_pred             ------HcCCCcEEEEECCcchhh
Q psy2609          91 ------LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        91 ------~~~~p~ilv~NK~Dl~~~  108 (161)
                            ...+|+++..||||....
T Consensus       127 k~qLpng~Pv~~vllankCd~e~~  150 (229)
T KOG4423|consen  127 KLQLPNGTPVPCVLLANKCDQEKS  150 (229)
T ss_pred             cccCCCCCcchheeccchhccChH
Confidence                  124567899999998653

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.79  E-value=2.6e-05  Score=58.17  Aligned_cols=44  Identities=25%  Similarity=0.206  Sum_probs=34.1

Q ss_pred             CEEEEEEeCCCCCChhHHHHHHH--HHHcCCCcEEEEECCcchhhh
Q psy2609          66 DGTIIVVDCVEGICAQTQVALKQ--AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~~~--~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      |++++|+|+..+.......+.+.  +...+.|+|+|+||+|+...+
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp~IlVlNK~DL~~~~   46 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKKLVLVLNKIDLVPKE   46 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhccCCCCEEEEEehhhcCCHH
Confidence            78999999988776655566555  334578999999999997544

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

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.73  E-value=0.00018  Score=53.25  Aligned_cols=66  Identities=20%  Similarity=0.163  Sum_probs=50.3

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ..+.++++||||..  .......+..+|.+++++..+..........++.+...++|+.+|+||+|..
T Consensus        91 ~~~d~viiDtpp~~--~~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~~~vV~N~~~~~  156 (179)
T cd03110          91 EGAELIIIDGPPGI--GCPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIPVGVVINKYDLN  156 (179)
T ss_pred             cCCCEEEEECcCCC--cHHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcCCCEEEEEeCCCCC
Confidence            37889999999753  2355677889999999999875433444566666777788889999999964

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.70  E-value=0.00043  Score=56.26  Aligned_cols=98  Identities=14%  Similarity=0.095  Sum_probs=55.9

Q ss_pred             ccccccccCCchhHHHc------CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH---HHHHHHHH------hcC
Q psy2609           2 LCMVSSYMDSRKDEQER------GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS---SEVSTAVR------LCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~------giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~---~~~~~~l~------~~d   66 (161)
                      ++||+++++.+-.++..      +.+.........+       .+.++.+|||||..+..   ......++      ..|
T Consensus        48 GVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~-------~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~D  120 (313)
T TIGR00991        48 GVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR-------AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTID  120 (313)
T ss_pred             CCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE-------CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCC
Confidence            57899998776655421      1111111111112       26799999999987532   22223333      478


Q ss_pred             EEEEEEeCCC-CCChhHHHHHHHHHH-----cCCCcEEEEECCcch
Q psy2609          67 GTIIVVDCVE-GICAQTQVALKQAWL-----EKIQPILVLNKIDRL  106 (161)
Q Consensus        67 ~~ilVvd~~~-~~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~  106 (161)
                      ++++|...+. .....+..+++.+..     .-.+.|++.+++|..
T Consensus       121 vVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       121 VLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             EEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence            9999965442 234344444443332     125679999999976

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.67  E-value=3.7e-05  Score=60.45  Aligned_cols=56  Identities=30%  Similarity=0.229  Sum_probs=41.8

Q ss_pred             hhhHHHHHHHHHhcCEEEEEEeCCCCC-ChhH-HHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          52 VDFSSEVSTAVRLCDGTIIVVDCVEGI-CAQT-QVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        52 ~~~~~~~~~~l~~~d~~ilVvd~~~~~-~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +++...++.+++++|++++|+|+++.. +... ..++..+...++|+++|+||+||..
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~~vIV~NK~DL~~   81 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLLD   81 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEECcccCC
Confidence            567777788999999999999998543 3222 2333444457899999999999964

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG3883|consensus

Probab=97.66  E-value=0.00014  Score=53.27  Aligned_cols=70  Identities=17%  Similarity=0.126  Sum_probs=50.5

Q ss_pred             CCceeEEEEeCCCchhh-HHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH-HHH----HcCCCcEEEEECCcchh
Q psy2609          38 PEEYLINLIDSPGHVDF-SSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK-QAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~-~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~-~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      +-.-++.|.||+|.... ..+-..|+..+|++++|+|..+.-+.+..+.+. .+.    +..+|+++.+||+|+..
T Consensus        57 garE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~  132 (198)
T KOG3883|consen   57 GAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAE  132 (198)
T ss_pred             ChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhccc
Confidence            44558999999998777 445667788899999999988654444433332 121    24689999999999953

>KOG1707|consensus

Probab=97.66  E-value=0.00012  Score=63.34  Aligned_cols=104  Identities=18%  Similarity=0.091  Sum_probs=64.6

Q ss_pred             ccccccc-CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC--
Q psy2609           3 CMVSSYM-DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC--   79 (161)
Q Consensus         3 ~g~~~~~-D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~--   79 (161)
                      +|||.++ .-..+|.-..+....-.+.+.-..   +.+.....++||+.-.+-.......++.||++++|+++++..+  
T Consensus        20 ~GKtSLImSL~~eef~~~VP~rl~~i~IPadv---tPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D   96 (625)
T KOG1707|consen   20 VGKTSLIMSLLEEEFVDAVPRRLPRILIPADV---TPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVD   96 (625)
T ss_pred             ccHHHHHHHHHhhhccccccccCCccccCCcc---CcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhh
Confidence            5777765 222333333333333333333221   1445679999999877767778889999999999999885332  


Q ss_pred             hhHHHHHHHHHH-----cCCCcEEEEECCcchhhh
Q psy2609          80 AQTQVALKQAWL-----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        80 ~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~~~~  109 (161)
                      .-...++-..+.     .++|+|+|+||+|+....
T Consensus        97 ~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~  131 (625)
T KOG1707|consen   97 RISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNE  131 (625)
T ss_pred             hhhhhhhhhhhcccCCCccCCEEEEeeccCCcccc
Confidence            112222233322     479999999999986543

>cd01900 YchF YchF subfamily

Probab=97.63  E-value=6.1e-05  Score=60.26  Aligned_cols=74  Identities=18%  Similarity=0.198  Sum_probs=49.8

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCC-------CC---CceeEEEEeCCCchh-------hHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKD-------TP---EEYLINLIDSPGHVD-------FSSEVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~-------~~---~~~~i~iiDTpG~~~-------~~~~~~   59 (161)
                      |+|||++++.+.....     ++.|++.....+.+.....       ..   -..++.++||||..+       +.....
T Consensus         8 N~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~glg~~fL   87 (274)
T cd01900           8 NVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNKFL   87 (274)
T ss_pred             CCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhHHHHHHH
Confidence            8999999877654333     6778777666665542100       00   013699999999532       344566


Q ss_pred             HHHHhcCEEEEEEeCC
Q psy2609          60 TAVRLCDGTIIVVDCV   75 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~   75 (161)
                      ..++.+|++++|+|+.
T Consensus        88 ~~i~~~D~li~VV~~f  103 (274)
T cd01900          88 SHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHhCCEEEEEEeCc
Confidence            7788999999999974

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=97.62  E-value=0.00018  Score=57.38  Aligned_cols=69  Identities=14%  Similarity=0.129  Sum_probs=53.4

Q ss_pred             ceeEEEEeCCCchh-------hHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVD-------FSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ...++||||||.++       +......++...|.+++++++.+.--..++..++....  .+.|+++++|-+|....
T Consensus        86 ~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~~~~i~~VtQ~D~a~p  163 (296)
T COG3596          86 GENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDKRVLFVVTQADRAEP  163 (296)
T ss_pred             ccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccCceeEEEEehhhhhcc
Confidence            46899999999876       67778899999999999999986544445555554433  35799999999998653

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=97.61  E-value=2.9e-05  Score=55.05  Aligned_cols=90  Identities=17%  Similarity=0.127  Sum_probs=58.1

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----hhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----VDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      -|||++++..+..+..    .-.+..-+.|+.     +    -.|||||-    .++.......+..+|++++|-.++++
T Consensus        11 gcGKTtL~q~L~G~~~----lykKTQAve~~d-----~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~   77 (148)
T COG4917          11 GCGKTTLFQSLYGNDT----LYKKTQAVEFND-----K----GDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDP   77 (148)
T ss_pred             ccCchhHHHHhhcchh----hhcccceeeccC-----c----cccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCc
Confidence            3789998877766652    212223345541     1    26899993    34555566677789999999999865


Q ss_pred             CChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .+.-.   ...+.-...|+|-+++|.|++.
T Consensus        78 ~s~f~---p~f~~~~~k~vIgvVTK~DLae  104 (148)
T COG4917          78 ESRFP---PGFLDIGVKKVIGVVTKADLAE  104 (148)
T ss_pred             cccCC---cccccccccceEEEEecccccc
Confidence            43222   1223334567999999999984

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.59  E-value=0.00049  Score=56.38  Aligned_cols=100  Identities=15%  Similarity=0.050  Sum_probs=58.7

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      ||||++++.....-+.     +=.|+..+.-.+..      .....+++-|.||.-.       +.-.-...+..+.+.+
T Consensus       169 NaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~------~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~  242 (369)
T COG0536         169 NAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV------DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLL  242 (369)
T ss_pred             CCcHHHHHHHHhhcCCcccCCccccccCcccEEEe------cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeE
Confidence            8999999866543221     11222222222222      2255799999999632       2223445677788999


Q ss_pred             EEEeCCCCC----ChhHHHHHHHHHH-----cCCCcEEEEECCcchh
Q psy2609          70 IVVDCVEGI----CAQTQVALKQAWL-----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        70 lVvd~~~~~----~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~~  107 (161)
                      .|+|++..-    ......+...+.+     .++|.++|.||+|++.
T Consensus       243 hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~  289 (369)
T COG0536         243 HVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPL  289 (369)
T ss_pred             EEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCc
Confidence            999997322    2222333333322     4789999999999653

>PRK12289 GTPase RsgA; Reviewed

Probab=97.58  E-value=3.1e-05  Score=64.06  Aligned_cols=53  Identities=21%  Similarity=0.077  Sum_probs=37.9

Q ss_pred             HHHHHHHHhcCEEEEEEeCCCCC-Chh-HHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          56 SEVSTAVRLCDGTIIVVDCVEGI-CAQ-TQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        56 ~~~~~~l~~~d~~ilVvd~~~~~-~~~-~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ...+.++.++|.+++|+|+.+.. ... ...++..+...++|+++|+||+||...
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~ip~ILVlNK~DLv~~  135 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLVSP  135 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEchhcCCh
Confidence            34566789999999999997542 332 133334444578999999999999743

>KOG0082|consensus

Probab=97.48  E-value=0.00086  Score=55.35  Aligned_cols=84  Identities=15%  Similarity=0.073  Sum_probs=59.4

Q ss_pred             CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC--CC---------hhHHHHHH
Q psy2609          19 GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG--IC---------AQTQVALK   87 (161)
Q Consensus        19 giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~--~~---------~~~~~~~~   87 (161)
                      --|.......|.+.       +..+-++|.+||..-++.|...+.+++++|||++.++-  +.         .....+..
T Consensus       180 ~~T~GI~e~~F~~k-------~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~  252 (354)
T KOG0082|consen  180 VPTTGIVEVEFTIK-------GLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFE  252 (354)
T ss_pred             cCcCCeeEEEEEeC-------CCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHH
Confidence            33444555666666       78999999999988888899999999999999998621  11         11122222


Q ss_pred             HHHH----cCCCcEEEEECCcchhhh
Q psy2609          88 QAWL----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        88 ~~~~----~~~p~ilv~NK~Dl~~~~  109 (161)
                      .+..    .+.++||++||.||....
T Consensus       253 sI~n~~~F~~tsiiLFLNK~DLFeEK  278 (354)
T KOG0082|consen  253 SICNNKWFANTSIILFLNKKDLFEEK  278 (354)
T ss_pred             HHhcCcccccCcEEEEeecHHHHHHH
Confidence            2222    368899999999998654

>PTZ00258 GTP-binding protein; Provisional

Probab=97.46  E-value=0.00014  Score=60.89  Aligned_cols=74  Identities=16%  Similarity=0.170  Sum_probs=50.1

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCC----------CCCCceeEEEEeCCCchh-------hHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNK----------DTPEEYLINLIDSPGHVD-------FSSEVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~----------~~~~~~~i~iiDTpG~~~-------~~~~~~   59 (161)
                      |+|||++++.+...+     -++.|++.....+.+....          ...-..++.|+||||...       +.....
T Consensus        31 NvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~~g~gLg~~fL  110 (390)
T PTZ00258         31 NVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASEGEGLGNAFL  110 (390)
T ss_pred             CCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCcchhHHHHHHH
Confidence            899999987774332     2567777666555543110          001134799999999632       445667


Q ss_pred             HHHHhcCEEEEEEeCC
Q psy2609          60 TAVRLCDGTIIVVDCV   75 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~   75 (161)
                      ..++.+|++++|+|+.
T Consensus       111 ~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        111 SHIRAVDGIYHVVRAF  126 (390)
T ss_pred             HHHHHCCEEEEEEeCC
Confidence            7889999999999984

>KOG1954|consensus

Probab=97.46  E-value=0.00083  Score=55.83  Aligned_cols=68  Identities=21%  Similarity=0.301  Sum_probs=53.8

Q ss_pred             eEEEEeCCCch-----------hhHHHHHHHHHhcCEEEEEEeCCC-CCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          42 LINLIDSPGHV-----------DFSSEVSTAVRLCDGTIIVVDCVE-GICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        42 ~i~iiDTpG~~-----------~~~~~~~~~l~~~d~~ilVvd~~~-~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+||||.-           +|.....-....+|.+++++|+.. .++.....++..++...=.+=+|+||.|.+..+
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~EdkiRVVLNKADqVdtq  227 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHEDKIRVVLNKADQVDTQ  227 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCcceeEEEeccccccCHH
Confidence            69999999962           366667777888999999999863 566777777777776555666899999998654

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=97.34  E-value=0.00025  Score=58.86  Aligned_cols=74  Identities=16%  Similarity=0.169  Sum_probs=49.4

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCC---------C-CCCceeEEEEeCCCchh-------hHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNK---------D-TPEEYLINLIDSPGHVD-------FSSEVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~---------~-~~~~~~i~iiDTpG~~~-------~~~~~~   59 (161)
                      |+|||++++.+...+     -++.|++.....+.+....         + ..-..++.++||||..+       +.....
T Consensus        12 NvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~g~glg~~fL   91 (364)
T PRK09601         12 NVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNQFL   91 (364)
T ss_pred             CCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCChHHHHHHHHH
Confidence            899999987665433     3677777665555544210         0 00113699999999632       344566


Q ss_pred             HHHHhcCEEEEEEeCC
Q psy2609          60 TAVRLCDGTIIVVDCV   75 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~   75 (161)
                      ..++.+|++++|+|+.
T Consensus        92 ~~i~~aD~li~VVd~f  107 (364)
T PRK09601         92 ANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHhCCEEEEEEeCC
Confidence            7788999999999984

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=97.31  E-value=0.00088  Score=53.79  Aligned_cols=71  Identities=20%  Similarity=0.260  Sum_probs=45.0

Q ss_pred             CCceeEEEEeCCCchhh-------------H-HHHHHHHH-------------hcCEEEEEEeCC-CCCChhHHHHHHHH
Q psy2609          38 PEEYLINLIDSPGHVDF-------------S-SEVSTAVR-------------LCDGTIIVVDCV-EGICAQTQVALKQA   89 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~-------------~-~~~~~~l~-------------~~d~~ilVvd~~-~~~~~~~~~~~~~~   89 (161)
                      +-..++.++||||+-+.             . ..-..++.             ..+++++.++++ .++.+.+...++.+
T Consensus        60 ~~~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~L  139 (281)
T PF00735_consen   60 GVKLNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRL  139 (281)
T ss_dssp             CEEEEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHH
T ss_pred             CcceEEEEEeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHh
Confidence            45678999999996421             1 01111221             147999999986 56777777766655


Q ss_pred             HHcCCCcEEEEECCcchhhh
Q psy2609          90 WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      . ..+++|-|+.|.|....+
T Consensus       140 s-~~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen  140 S-KRVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             T-TTSEEEEEESTGGGS-HH
T ss_pred             c-ccccEEeEEecccccCHH
Confidence            3 468899999999998755

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.

>KOG3886|consensus

Probab=97.28  E-value=0.001  Score=52.09  Aligned_cols=89  Identities=18%  Similarity=0.228  Sum_probs=60.1

Q ss_pred             HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH-----HHHHHHhcCEEEEEEeCCCCCChhH----HHH
Q psy2609          15 EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE-----VSTAVRLCDGTIIVVDCVEGICAQT----QVA   85 (161)
Q Consensus        15 E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~-----~~~~l~~~d~~ilVvd~~~~~~~~~----~~~   85 (161)
                      -+..|-|++....++.|-+      +..+++||+.|++.|...     -...++++++.++|+|+...--..+    ...
T Consensus        33 ~~rlg~tidveHsh~RflG------nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~  106 (295)
T KOG3886|consen   33 TRRLGATIDVEHSHVRFLG------NLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKC  106 (295)
T ss_pred             hhccCCcceeeehhhhhhh------hheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHH
Confidence            3466888887777777753      578999999999876554     3446778999999999974321122    222


Q ss_pred             HHHHHH--cCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWL--EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~--~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++.+.+  ....+++.+.|+|+...+
T Consensus       107 Le~ll~~SP~AkiF~l~hKmDLv~~d  132 (295)
T KOG3886|consen  107 LEALLQNSPEAKIFCLLHKMDLVQED  132 (295)
T ss_pred             HHHHHhcCCcceEEEEEeechhcccc
Confidence            232222  244567889999998644

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=97.28  E-value=0.00055  Score=56.99  Aligned_cols=96  Identities=17%  Similarity=0.108  Sum_probs=52.3

Q ss_pred             cccccccCCchh-------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHH-----HhcCEEEE
Q psy2609           3 CMVSSYMDSRKD-------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAV-----RLCDGTII   70 (161)
Q Consensus         3 ~g~~~~~D~~~~-------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l-----~~~d~~il   70 (161)
                      +||+++++.+..       .-..|++ .+......|..    .+--.+.+||.||..--.-....|+     ...|.+|+
T Consensus        46 sGKSSfINalrGl~~~d~~aA~tGv~-etT~~~~~Y~~----p~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fii  120 (376)
T PF05049_consen   46 SGKSSFINALRGLGHEDEGAAPTGVV-ETTMEPTPYPH----PKFPNVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFII  120 (376)
T ss_dssp             SSHHHHHHHHTT--TTSTTS--SSSH-SCCTS-EEEE-----SS-TTEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEE
T ss_pred             CCHHHHHHHHhCCCCCCcCcCCCCCC-cCCCCCeeCCC----CCCCCCeEEeCCCCCCCCCCHHHHHHHccccccCEEEE
Confidence            789999877642       1122332 22222333331    1123699999999743333344444     45688888


Q ss_pred             EEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcc
Q psy2609          71 VVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        71 Vvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      +.+..  ....+..+++.+...++|+.+|-+|+|.
T Consensus       121 i~s~r--f~~ndv~La~~i~~~gK~fyfVRTKvD~  153 (376)
T PF05049_consen  121 ISSER--FTENDVQLAKEIQRMGKKFYFVRTKVDS  153 (376)
T ss_dssp             EESSS----HHHHHHHHHHHHTT-EEEEEE--HHH
T ss_pred             EeCCC--CchhhHHHHHHHHHcCCcEEEEEecccc
Confidence            77543  4566677788888899999999999996

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.

>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=97.26  E-value=0.0016  Score=39.91  Aligned_cols=48  Identities=29%  Similarity=0.298  Sum_probs=25.5

Q ss_pred             HHHHHHHh-cCEEEEEEeCCCCCC--hhHH-HHHHHHHH-c-CCCcEEEEECCc
Q psy2609          57 EVSTAVRL-CDGTIIVVDCVEGIC--AQTQ-VALKQAWL-E-KIQPILVLNKID  104 (161)
Q Consensus        57 ~~~~~l~~-~d~~ilVvd~~~~~~--~~~~-~~~~~~~~-~-~~p~ilv~NK~D  104 (161)
                      ++..+++. .+++++++|.++...  .... .+.+.++. . ++|+++|+||+|
T Consensus         5 qai~AL~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen    5 QAITALAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             HHHHGGGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             HHHHHHHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            34455544 689999999985432  2222 22233332 3 899999999998

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.25  E-value=0.00012  Score=58.84  Aligned_cols=47  Identities=30%  Similarity=0.244  Sum_probs=35.0

Q ss_pred             HHhcCEEEEEEeCCCCC-ChhH-HHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          62 VRLCDGTIIVVDCVEGI-CAQT-QVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        62 l~~~d~~ilVvd~~~~~-~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +.++|.+++|+|++++. +... ..++..+...++|+++|+||+||...
T Consensus        76 ~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~~ip~iIVlNK~DL~~~  124 (287)
T cd01854          76 AANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAAGIEPVIVLTKADLLDD  124 (287)
T ss_pred             EEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEEEHHHCCCh
Confidence            78899999999998765 3222 33344455678999999999999643

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.

>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=97.25  E-value=0.00051  Score=57.36  Aligned_cols=84  Identities=20%  Similarity=0.158  Sum_probs=57.3

Q ss_pred             CccccceEEEEe-ecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC---------CC--hhHHHHHH
Q psy2609          20 ITMKSSSISLYY-KDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG---------IC--AQTQVALK   87 (161)
Q Consensus        20 iti~~~~~~~~~-~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~---------~~--~~~~~~~~   87 (161)
                      .|.......+.+ .       ...+.++|..|+..-++.|..++.+++++|+|++..+-         ..  .....+++
T Consensus       221 ~T~Gi~e~~f~~~~-------~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~  293 (389)
T PF00503_consen  221 KTTGITEIDFNFSG-------SRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFE  293 (389)
T ss_dssp             --SSEEEEEEEE-T-------TEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHH
T ss_pred             CCCCeeEEEEEeec-------ccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHH
Confidence            344444555555 4       78999999999988888899999999999999997521         11  11122333


Q ss_pred             HHHH----cCCCcEEEEECCcchhhhh
Q psy2609          88 QAWL----EKIQPILVLNKIDRLILEM  110 (161)
Q Consensus        88 ~~~~----~~~p~ilv~NK~Dl~~~~~  110 (161)
                      .+..    .+.|+||+.||+|+.....
T Consensus       294 ~i~~~~~~~~~~iil~lnK~D~f~~Kl  320 (389)
T PF00503_consen  294 SICNNPWFKNTPIILFLNKIDLFEEKL  320 (389)
T ss_dssp             HHHTSGGGTTSEEEEEEE-HHHHHHHT
T ss_pred             HHHhCcccccCceEEeeecHHHHHHHc
Confidence            2221    3789999999999986543

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 ....

>PRK00098 GTPase RsgA; Reviewed

Probab=97.23  E-value=0.00017  Score=58.26  Aligned_cols=45  Identities=33%  Similarity=0.336  Sum_probs=33.0

Q ss_pred             HHhcCEEEEEEeCCCCCC-hh-HHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          62 VRLCDGTIIVVDCVEGIC-AQ-TQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        62 l~~~d~~ilVvd~~~~~~-~~-~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ..++|.+++|+|+++... .. ...++..+...++|+++|+||+|+.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip~iIVlNK~DL~  124 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLL  124 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEhHHcC
Confidence            488999999999975432 22 1334444556789999999999996

>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=97.19  E-value=0.006  Score=46.74  Aligned_cols=99  Identities=17%  Similarity=0.140  Sum_probs=53.7

Q ss_pred             cccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHH----HHh
Q psy2609           3 CMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTA----VRL   64 (161)
Q Consensus         3 ~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~----l~~   64 (161)
                      +||+++.+......       ...+|.........+.       +..+.+|||||.-+       ....+..+    ..+
T Consensus        11 sGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~-------g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g   83 (212)
T PF04548_consen   11 SGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVD-------GRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPG   83 (212)
T ss_dssp             SSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEET-------TEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-
T ss_pred             CCHHHHHHHHhcccceeeccccCCcccccceeeeeec-------ceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCC
Confidence            57777754432111       1233444333444444       78999999999633       22233332    345


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHH-cC----CCcEEEEECCcchhhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWL-EK----IQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~-~~----~p~ilv~NK~Dl~~~~  109 (161)
                      .+++++|+... .++..+...++.+.. .+    .-++++.+..|.....
T Consensus        84 ~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~  132 (212)
T PF04548_consen   84 PHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDD  132 (212)
T ss_dssp             ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTT
T ss_pred             CeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccc
Confidence            78999999988 566666666655543 22    2357788888866543

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 ....

>PRK09602 translation-associated GTPase; Reviewed

Probab=97.18  E-value=0.00045  Score=58.05  Aligned_cols=74  Identities=19%  Similarity=0.170  Sum_probs=45.6

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecC----------------CC-CCCceeEEEEeCCCch----h--
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDN----------------KD-TPEEYLINLIDSPGHV----D--   53 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~----------------~~-~~~~~~i~iiDTpG~~----~--   53 (161)
                      |+|||++++.+.....     ++.|++...........                .. .....++.||||||..    +  
T Consensus        11 nvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aGl~~ga~~g~   90 (396)
T PRK09602         11 NVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAGLVPGAHEGR   90 (396)
T ss_pred             CCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCCcCCCccchh
Confidence            7999999877654332     34554444322221000                00 0123679999999952    2  


Q ss_pred             -hHHHHHHHHHhcCEEEEEEeCC
Q psy2609          54 -FSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        54 -~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                       +.......++.+|++++|+|+.
T Consensus        91 glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         91 GLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             hHHHHHHHHHHHCCEEEEEEeCC
Confidence             3345666699999999999996

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.15  E-value=0.00063  Score=56.38  Aligned_cols=56  Identities=21%  Similarity=0.042  Sum_probs=43.2

Q ss_pred             chhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          51 HVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        51 ~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .++|......+++.++++++|+|+.+....+...+.+..  .+.|+++|+||+|+...
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~--~~~piilV~NK~DLl~k  105 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEGSLIPELKRFV--GGNPVLLVGNKIDLLPK  105 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCCCccHHHHHHh--CCCCEEEEEEchhhCCC
Confidence            567888888888999999999999876555544444433  37899999999999643

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.06  E-value=0.0063  Score=43.47  Aligned_cols=64  Identities=17%  Similarity=0.145  Sum_probs=43.4

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH--cCCCcEEEEECCcch
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL--EKIQPILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~  106 (161)
                      +.+.++|||+..  .......+..+|.+++|++.+...-......++.+..  ...+..+++|+++..
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~~  110 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNRAESP  110 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCChhHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCH
Confidence            789999999853  3445678999999999998864322223334444432  234566999999754

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.

>KOG1490|consensus

Probab=97.02  E-value=0.0025  Score=54.75  Aligned_cols=70  Identities=31%  Similarity=0.320  Sum_probs=40.8

Q ss_pred             ceeEEEEeCCCchh-----hHHH---HHHHHH-hcCEEEEEEeCCCCC--ChhHHHHH-HHHHH--cCCCcEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVD-----FSSE---VSTAVR-LCDGTIIVVDCVEGI--CAQTQVAL-KQAWL--EKIQPILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-----~~~~---~~~~l~-~~d~~ilVvd~~~~~--~~~~~~~~-~~~~~--~~~p~ilv~NK~Dl  105 (161)
                      -..++.+||||.-+     .+..   +..++. --.+++++.|.++..  +......+ ..++.  .+.|.|+|+||+|+
T Consensus       214 YlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~  293 (620)
T KOG1490|consen  214 YLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDA  293 (620)
T ss_pred             eeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccc
Confidence            34799999999633     2111   222222 234788899987533  22221111 11211  48899999999999


Q ss_pred             hhhh
Q psy2609         106 LILE  109 (161)
Q Consensus       106 ~~~~  109 (161)
                      ...+
T Consensus       294 m~~e  297 (620)
T KOG1490|consen  294 MRPE  297 (620)
T ss_pred             cCcc
Confidence            7654

>KOG0099|consensus

Probab=96.99  E-value=0.0048  Score=49.28  Aligned_cols=70  Identities=26%  Similarity=0.294  Sum_probs=51.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------CC-hhHH-------HHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------IC-AQTQ-------VALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~~-~~~~-------~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ...+...|..|+.+-+..+...+.++-++|+|+.++.-       .+ ....       .+|..-....+.+|+++||-|
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqD  280 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQD  280 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHH
Confidence            67899999999999999999999999999999988621       11 1111       223222224578899999999


Q ss_pred             chhhh
Q psy2609         105 RLILE  109 (161)
Q Consensus       105 l~~~~  109 (161)
                      +....
T Consensus       281 llaeK  285 (379)
T KOG0099|consen  281 LLAEK  285 (379)
T ss_pred             HHHHH
Confidence            97644

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.80  E-value=0.0016  Score=53.58  Aligned_cols=62  Identities=18%  Similarity=0.119  Sum_probs=38.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++.+.|+||+|...-.   ......||.+++|.+...+-.-+...  .  ....+.-++|+||+|+...
T Consensus       148 g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k--~--gi~E~aDIiVVNKaDl~~~  209 (332)
T PRK09435        148 GYDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIK--K--GIMELADLIVINKADGDNK  209 (332)
T ss_pred             CCCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHH--h--hhhhhhheEEeehhcccch
Confidence            5789999999986322   22466799999997633222111111  0  0112334899999998753

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=96.77  E-value=0.0081  Score=45.41  Aligned_cols=67  Identities=27%  Similarity=0.292  Sum_probs=48.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      .+.++|+|||..... .......+.+|.+|+|+++............+.+...+.+++ +|+||++...
T Consensus       127 ~yD~ViiD~pp~~~~-~~~~~~~~~~D~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~gvVlN~~~~~~  194 (204)
T TIGR01007       127 YFDYIIIDTPPIGTV-TDAAIIARACDASILVTDAGEIKKRDVQKAKEQLEQTGSNFLGVVLNKVDISV  194 (204)
T ss_pred             cCCEEEEeCCCcccc-chHHHHHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEEeCccccc
Confidence            578999999974221 123344567999999999875555555666677777788876 7999998643

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=96.66  E-value=0.01  Score=43.30  Aligned_cols=63  Identities=17%  Similarity=0.111  Sum_probs=44.4

Q ss_pred             eEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          42 LINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .++++||||...  ......+..+|.+|++++............++.+...+.+. .+++|+++..
T Consensus        64 d~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~iv~N~~~~~  127 (179)
T cd02036          64 DYILIDSPAGIE--RGFITAIAPADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRVRPD  127 (179)
T ss_pred             CEEEEECCCCCc--HHHHHHHHhCCcEEEEeCCCcchHHHHHHHHHHHHHcCCceEEEEEeCCccc
Confidence            699999998643  34567789999999999887544344444555555555554 5899999864

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.65  E-value=0.0028  Score=49.65  Aligned_cols=64  Identities=23%  Similarity=0.222  Sum_probs=46.9

Q ss_pred             ceeEEEEeC-CCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC-CCcEEEEECCcch
Q psy2609          40 EYLINLIDS-PGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK-IQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDT-pG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~-~p~ilv~NK~Dl~  106 (161)
                      .+.+.++|| +|.|.|.   +...+++|.+|+|+|.+...-...+.+.++....+ .++.+|+||+|-.
T Consensus       133 ~~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~  198 (255)
T COG3640         133 RYEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cCcEEEEecccchhhhc---cccccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccch
Confidence            468899999 6677665   34567899999999987433344455666666678 6778999999954

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=96.62  E-value=0.018  Score=47.70  Aligned_cols=71  Identities=20%  Similarity=0.283  Sum_probs=48.3

Q ss_pred             CCceeEEEEeCCCchhhH--------------HHHHHHHHh--------------cCEEEEEEeCC-CCCChhHHHHHHH
Q psy2609          38 PEEYLINLIDSPGHVDFS--------------SEVSTAVRL--------------CDGTIIVVDCV-EGICAQTQVALKQ   88 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~--------------~~~~~~l~~--------------~d~~ilVvd~~-~~~~~~~~~~~~~   88 (161)
                      +-..+++++||||.-++.              .+-..|+..              ++++++.+..+ .++.+.+.+..+.
T Consensus        79 ~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~  158 (373)
T COG5019          79 GFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKR  158 (373)
T ss_pred             CeEEEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHH
Confidence            446789999999974421              122222221              46889988865 6777777766554


Q ss_pred             HHHcCCCcEEEEECCcchhhh
Q psy2609          89 AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      + ...+.+|-|+-|.|....+
T Consensus       159 l-s~~vNlIPVI~KaD~lT~~  178 (373)
T COG5019         159 L-SKRVNLIPVIAKADTLTDD  178 (373)
T ss_pred             H-hcccCeeeeeeccccCCHH
Confidence            4 3467889999999998765

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.58  E-value=0.0095  Score=48.11  Aligned_cols=62  Identities=21%  Similarity=0.204  Sum_probs=40.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.+.|+||||..   ......+..+|.++++.....+   ........ ...++|.++|+||+|+...
T Consensus       126 g~D~viidT~G~~---~~e~~i~~~aD~i~vv~~~~~~---~el~~~~~-~l~~~~~ivv~NK~Dl~~~  187 (300)
T TIGR00750       126 GYDVIIVETVGVG---QSEVDIANMADTFVVVTIPGTG---DDLQGIKA-GLMEIADIYVVNKADGEGA  187 (300)
T ss_pred             CCCEEEEeCCCCc---hhhhHHHHhhceEEEEecCCcc---HHHHHHHH-HHhhhccEEEEEcccccch
Confidence            5789999999964   2223456778988888654321   22111111 1246889999999999754

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.

>KOG2484|consensus

Probab=96.51  E-value=0.0083  Score=50.17  Aligned_cols=57  Identities=25%  Similarity=0.272  Sum_probs=41.1

Q ss_pred             hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHH-H-cCCCcEEEEECCcchhhh
Q psy2609          53 DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW-L-EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        53 ~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~-~-~~~p~ilv~NK~Dl~~~~  109 (161)
                      .|.......+..+|++|.|+||.++......++-++.. . .+...|+|+||+|++..+
T Consensus       135 aY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLVPrE  193 (435)
T KOG2484|consen  135 AYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLVPRE  193 (435)
T ss_pred             HHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccCCHH
Confidence            35667778888899999999999877533333333332 2 347889999999998665

>PRK01889 GTPase RsgA; Reviewed

Probab=96.48  E-value=0.0061  Score=50.50  Aligned_cols=46  Identities=24%  Similarity=0.292  Sum_probs=36.2

Q ss_pred             HHhcCEEEEEEeCCCCCCh-hHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          62 VRLCDGTIIVVDCVEGICA-QTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        62 l~~~d~~ilVvd~~~~~~~-~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..++|.+++|+++..++.. ....++..+...++|.++|+||+||..
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~piIVLNK~DL~~  156 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWESGAEPVIVLTKADLCE  156 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHcCCCEEEEEEChhcCC
Confidence            4678999999999766554 344556666778999999999999974

>PRK12288 GTPase RsgA; Reviewed

Probab=96.48  E-value=0.003  Score=52.18  Aligned_cols=45  Identities=29%  Similarity=0.296  Sum_probs=32.1

Q ss_pred             HhcCEEEEEEeCCCCCChhH-HHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          63 RLCDGTIIVVDCVEGICAQT-QVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        63 ~~~d~~ilVvd~~~~~~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .++|.+++|++......... ..++..+...++|.++|+||+|+..
T Consensus       119 ANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~~~i~~VIVlNK~DL~~  164 (347)
T PRK12288        119 ANIDQIVIVSAVLPELSLNIIDRYLVACETLGIEPLIVLNKIDLLD  164 (347)
T ss_pred             EEccEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEECccCCC
Confidence            55899999999875554333 2233344556899999999999964

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=96.45  E-value=0.016  Score=50.84  Aligned_cols=99  Identities=13%  Similarity=0.111  Sum_probs=70.6

Q ss_pred             cccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhH
Q psy2609           3 CMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQT   82 (161)
Q Consensus         3 ~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~   82 (161)
                      +||++++-.+..-.. ..|++-....+....    ++..+++|+.||.  + ...+....+-||.+++++|+.-|..-.+
T Consensus        80 tGKsTLirSlVrr~t-k~ti~~i~GPiTvvs----gK~RRiTflEcp~--D-l~~miDvaKIaDLVlLlIdgnfGfEMET  151 (1077)
T COG5192          80 TGKSTLIRSLVRRFT-KQTIDEIRGPITVVS----GKTRRITFLECPS--D-LHQMIDVAKIADLVLLLIDGNFGFEMET  151 (1077)
T ss_pred             CChhHHHHHHHHHHH-HhhhhccCCceEEee----cceeEEEEEeChH--H-HHHHHhHHHhhheeEEEeccccCceehH
Confidence            466666543322221 223333333333332    6688999999994  2 4466777788999999999999999999


Q ss_pred             HHHHHHHHHcCCCcE-EEEECCcchhhh
Q psy2609          83 QVALKQAWLEKIQPI-LVLNKIDRLILE  109 (161)
Q Consensus        83 ~~~~~~~~~~~~p~i-lv~NK~Dl~~~~  109 (161)
                      .+.+..+...+.|.+ .|++-.|+.+..
T Consensus       152 mEFLnil~~HGmPrvlgV~ThlDlfk~~  179 (1077)
T COG5192         152 MEFLNILISHGMPRVLGVVTHLDLFKNP  179 (1077)
T ss_pred             HHHHHHHhhcCCCceEEEEeecccccCh
Confidence            999999999999987 489999997643

>cd03114 ArgK-like The function of this protein family is unkown

Probab=96.39  E-value=0.013  Score=42.54  Aligned_cols=58  Identities=21%  Similarity=0.286  Sum_probs=38.1

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      .+.+.|+||||..   ......+..||-+++|....    ..+...+........--++++||+|
T Consensus        91 ~~D~iiIDtaG~~---~~~~~~~~~Ad~~ivv~tpe----~~D~y~~~k~~~~~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVG---QSEVDIASMADTTVVVMAPG----AGDDIQAIKAGIMEIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccC---hhhhhHHHhCCEEEEEECCC----chhHHHHhhhhHhhhcCEEEEeCCC
Confidence            5789999999964   33346889999999998765    1111111111222344589999998

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=96.30  E-value=0.022  Score=50.88  Aligned_cols=99  Identities=17%  Similarity=0.033  Sum_probs=55.5

Q ss_pred             ccccccccCCchhHHHcCC------ccccceEEEEeecCCCCCCceeEEEEeCCCchhh----------HHHHHHHHH--
Q psy2609           2 LCMVSSYMDSRKDEQERGI------TMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF----------SSEVSTAVR--   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~gi------ti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~----------~~~~~~~l~--   63 (161)
                      ++||+++++..-.+..-.+      |.........+.       +.++.+|||||..+.          ...+..++.  
T Consensus       128 GVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~id-------G~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~  200 (763)
T TIGR00993       128 GVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQ-------GVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKN  200 (763)
T ss_pred             CCCHHHHHHHHhccccccccCCCCCceEEEEEEEEEC-------CceEEEEECCCCCccccchHHHHHHHHHHHHHHhcC
Confidence            6899999887766542111      111111111222       578999999998642          112333444  


Q ss_pred             hcCEEEEEEeCCCCCC-hhHHHHHHHHHH-cC----CCcEEEEECCcchh
Q psy2609          64 LCDGTIIVVDCVEGIC-AQTQVALKQAWL-EK----IQPILVLNKIDRLI  107 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~-~~~~~~~~~~~~-~~----~p~ilv~NK~Dl~~  107 (161)
                      ..|++|+|......-. ..+...++.+.. .+    .-+|+|.+..|...
T Consensus       201 gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       201 PPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             CCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            3789999987653222 123334443322 22    34588999999874

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.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=96.19  E-value=0.023  Score=41.68  Aligned_cols=66  Identities=23%  Similarity=0.100  Sum_probs=46.7

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHH--HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAV--RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l--~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      +.+.+.|+|||+.-.  ......+  ..+|.+++|+.............++.+...+.+++ +++|+.+..
T Consensus        66 ~~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~~~~gvv~N~~~~~  134 (169)
T cd02037          66 GELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFV  134 (169)
T ss_pred             CCCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCCCeEEEEEcCCccc
Confidence            367899999999632  2233333  57899999998765444555666677777788875 789998853

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>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=96.19  E-value=0.04  Score=40.41  Aligned_cols=66  Identities=20%  Similarity=0.257  Sum_probs=39.4

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.++++||||...    ..........  ..+.+++|+++..+. .............+ ..-++.||+|...
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~-~~~~~~~~~~~~~~-~~~viltk~D~~~  153 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQ-DAVNQAKAFNEALG-ITGVILTKLDGDA  153 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCCh-HHHHHHHHHHhhCC-CCEEEEECCcCCC
Confidence            55689999999742    3333322222  379999999986432 22223333333334 3457889999764

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.

>KOG2655|consensus

Probab=96.13  E-value=0.035  Score=46.11  Aligned_cols=71  Identities=20%  Similarity=0.256  Sum_probs=48.5

Q ss_pred             CCceeEEEEeCCCchhh--------------HHHHHHHHH-------------hcCEEEEEEeCC-CCCChhHHHHHHHH
Q psy2609          38 PEEYLINLIDSPGHVDF--------------SSEVSTAVR-------------LCDGTIIVVDCV-EGICAQTQVALKQA   89 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~--------------~~~~~~~l~-------------~~d~~ilVvd~~-~~~~~~~~~~~~~~   89 (161)
                      +-..+++++||||.-++              ..+-..|+.             .++++++.+..+ +|+.+.+....+.+
T Consensus        76 g~~l~LtvidtPGfGD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l  155 (366)
T KOG2655|consen   76 GVKLNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKL  155 (366)
T ss_pred             CeEEeeEEeccCCCcccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHH
Confidence            45678999999997432              111222222             256899999876 56777776665544


Q ss_pred             HHcCCCcEEEEECCcchhhh
Q psy2609          90 WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~~~  109 (161)
                       ...+.+|-|+-|.|....+
T Consensus       156 -~~~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen  156 -SKKVNLIPVIAKADTLTKD  174 (366)
T ss_pred             -hccccccceeeccccCCHH
Confidence             3468889999999998765

>cd03112 CobW_like The function of this protein family is unkown

Probab=96.04  E-value=0.017  Score=42.18  Aligned_cols=63  Identities=24%  Similarity=0.216  Sum_probs=37.5

Q ss_pred             ceeEEEEeCCCchhhHHHHH--------HHHHhcCEEEEEEeCCCCCChh--HHHHHHHHHHcCCCcEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVS--------TAVRLCDGTIIVVDCVEGICAQ--TQVALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~--------~~l~~~d~~ilVvd~~~~~~~~--~~~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      ..+++|+||||..+-.....        ...-..|.+++++|+.......  ......++..   -=++++||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~---ad~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF---ADRILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH---CCEEEEecccC
Confidence            56789999999864332222        2233478999999986432211  1112223322   23789999996

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.

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=96.01  E-value=0.035  Score=42.85  Aligned_cols=65  Identities=22%  Similarity=0.162  Sum_probs=44.6

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+++|++.....-.............+.+. .+++|+.+..
T Consensus       108 ~yD~VIiD~p~~~~--~~~~~~l~~ad~vliv~~~~~~s~~~~~~~~~~~~~~~~~~~~vv~N~~~~~  173 (251)
T TIGR01969       108 DTDFLLIDAPAGLE--RDAVTALAAADELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLNRVTRD  173 (251)
T ss_pred             hCCEEEEeCCCccC--HHHHHHHHhCCeEEEEECCCCchHHHHHHHHHHHHhcCCceEEEEEECCCch
Confidence            57899999998643  45667788999999999886332222233334444556665 4899999853

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>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=95.97  E-value=0.031  Score=38.04  Aligned_cols=59  Identities=17%  Similarity=0.086  Sum_probs=39.9

Q ss_pred             eEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCC----CcEEEEEC
Q psy2609          42 LINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKI----QPILVLNK  102 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~----p~ilv~NK  102 (161)
                      .++++|||+...  ......+..+|.++++++.+...........+.+...+.    ++.+|+|+
T Consensus        44 D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            789999999653  345678899999999998874333334444454444443    34578886

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.

>KOG2485|consensus

Probab=95.97  E-value=0.013  Score=47.64  Aligned_cols=66  Identities=23%  Similarity=0.182  Sum_probs=48.9

Q ss_pred             eeEEEEeCCCch-hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          41 YLINLIDSPGHV-DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        41 ~~i~iiDTpG~~-~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++...-+-|||- .-.+....-++..|++|=|-|+.-+++.....+-+.+.  .+|.|+|.|||||+..
T Consensus        22 ~~~~~~wfpgHmakalr~i~~~l~~~D~iiEvrDaRiPLssrn~~~~~~~~--~k~riiVlNK~DLad~   88 (335)
T KOG2485|consen   22 YNMPRRWFPGHMAKALRAIQNRLPLVDCIIEVRDARIPLSSRNELFQDFLP--PKPRIIVLNKMDLADP   88 (335)
T ss_pred             cCCccccCchHHHHHHHHHHhhcccccEEEEeeccccCCccccHHHHHhcC--CCceEEEEecccccCc
Confidence            344556778873 34556777788899999999999777665555544443  7889999999999873

>PHA02518 ParA-like protein; Provisional

Probab=95.93  E-value=0.088  Score=39.49  Aligned_cols=64  Identities=13%  Similarity=0.095  Sum_probs=40.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH-----cCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL-----EKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~-----~~~p~i-lv~NK~Dl  105 (161)
                      .+.++|+||||..  ...+..++..+|.+|+++..+...-.....+.+.+..     .+.|.+ ++.|+.+.
T Consensus        76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~n~~~~  145 (211)
T PHA02518         76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVTDGLPKFAFIISRAIK  145 (211)
T ss_pred             cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhCCCCceEEEEEeccCC
Confidence            5789999999963  4567889999999999998863221222222222221     245554 66777654

>KOG0447|consensus

Probab=95.87  E-value=0.065  Score=46.98  Aligned_cols=86  Identities=22%  Similarity=0.227  Sum_probs=58.7

Q ss_pred             HcCCccccceEEEEeecCCCCCCc-eeEEEEeCCCc-------------hhhHHHHHHHHHhcCEEEEEEeCCCCCChhH
Q psy2609          17 ERGITMKSSSISLYYKDNKDTPEE-YLINLIDSPGH-------------VDFSSEVSTAVRLCDGTIIVVDCVEGICAQT   82 (161)
Q Consensus        17 ~~giti~~~~~~~~~~~~~~~~~~-~~i~iiDTpG~-------------~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~   82 (161)
                      +-|.|+....+++..+     |.+ -++.++|.||.             +........++.+.+++|+++-  +|.-...
T Consensus       392 r~GkTVSnEvIsltVK-----GPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQ--DGSVDAE  464 (980)
T KOG0447|consen  392 KEGCTVSPETISLNVK-----GPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQ--DGSVDAE  464 (980)
T ss_pred             cCCcccccceEEEeec-----CCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEec--cCCcchh
Confidence            3477888777888777     334 36999999995             2345667888889999988872  2222111


Q ss_pred             ----HHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          83 ----QVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        83 ----~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                          -.+...+...+...|+|++|+|++..+
T Consensus       465 RSnVTDLVsq~DP~GrRTIfVLTKVDlAEkn  495 (980)
T KOG0447|consen  465 RSIVTDLVSQMDPHGRRTIFVLTKVDLAEKN  495 (980)
T ss_pred             hhhHHHHHHhcCCCCCeeEEEEeecchhhhc
Confidence                223344445677789999999997654

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=95.85  E-value=0.031  Score=44.68  Aligned_cols=64  Identities=19%  Similarity=0.068  Sum_probs=51.4

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ..+.|+|||---  .-.+..++.++|.+|+|...+..--.+...+++.....++|..+|+||.++-
T Consensus       164 ~~~~IIDsaaG~--gCpVi~sl~~aD~ai~VTEPTp~glhD~kr~~el~~~f~ip~~iViNr~~~g  227 (284)
T COG1149         164 ADLLIIDSAAGT--GCPVIASLKGADLAILVTEPTPFGLHDLKRALELVEHFGIPTGIVINRYNLG  227 (284)
T ss_pred             cceeEEecCCCC--CChHHHhhccCCEEEEEecCCccchhHHHHHHHHHHHhCCceEEEEecCCCC
Confidence            478999998742  2357789999999999999885544666777788888999999999999653

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.76  E-value=0.058  Score=45.90  Aligned_cols=65  Identities=20%  Similarity=0.185  Sum_probs=38.7

Q ss_pred             ceeEEEEeCCCchhh----HHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDF----SSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+.++|+||||....    ..+.....+  ..+-++||+|+..|-..  ..........--+--+++||+|-.
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a--~~~a~~F~~~~~~~g~IlTKlD~~  252 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAA--EAQAKAFKDSVDVGSVIITKLDGH  252 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhH--HHHHHHHHhccCCcEEEEECccCC
Confidence            578999999996432    233333322  35789999999854322  222222222222446889999963

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=95.69  E-value=0.016  Score=47.40  Aligned_cols=63  Identities=22%  Similarity=0.224  Sum_probs=47.9

Q ss_pred             EEeCCCc-hhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          45 LIDSPGH-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        45 iiDTpG~-~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +-+-||| .++..+....+..+|+++-|+|+..........+.+...  +.|.++|+||+|+....
T Consensus        14 i~~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~v~--~k~~i~vlNK~DL~~~~   77 (322)
T COG1161          14 IQWFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNPELERIVK--EKPKLLVLNKADLAPKE   77 (322)
T ss_pred             ccCCCCchHHHHHHHHHhcccCCEEEEEEeccccccccCccHHHHHc--cCCcEEEEehhhcCCHH
Confidence            3445887 467888999999999999999999776655555544443  45669999999998654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.64  E-value=0.098  Score=41.78  Aligned_cols=66  Identities=20%  Similarity=0.281  Sum_probs=38.2

Q ss_pred             CceeEEEEeCCCchhhHH----HHHH---HHH-----hcCEEEEEEeCCCCCChhHHHHHHHHHHcCC-CcEEEEECCcc
Q psy2609          39 EEYLINLIDSPGHVDFSS----EVST---AVR-----LCDGTIIVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKIDR  105 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~----~~~~---~l~-----~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~-p~ilv~NK~Dl  105 (161)
                      .++.+.|+||||......    +...   ...     ..|..++|+|++.+  ...........+ .+ +.-+++||+|-
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~~~~~f~~-~~~~~g~IlTKlDe  229 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALEQAKVFNE-AVGLTGIILTKLDG  229 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHHHHHHHHh-hCCCCEEEEEccCC
Confidence            357899999999643222    2222   222     27899999999743  222222222111 23 34689999997


Q ss_pred             hh
Q psy2609         106 LI  107 (161)
Q Consensus       106 ~~  107 (161)
                      ..
T Consensus       230 ~~  231 (272)
T TIGR00064       230 TA  231 (272)
T ss_pred             CC
Confidence            43

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.

>KOG0448|consensus

Probab=95.63  E-value=0.028  Score=49.92  Aligned_cols=67  Identities=24%  Similarity=0.219  Sum_probs=48.4

Q ss_pred             eEEEEeCCCch---hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcchhhh
Q psy2609          42 LINLIDSPGHV---DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRLILE  109 (161)
Q Consensus        42 ~i~iiDTpG~~---~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~  109 (161)
                      -+.++|.||..   .+...+......+|++|+|+.+....+......+...... +|. +++.||+|....+
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~~-KpniFIlnnkwDasase  277 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSEE-KPNIFILNNKWDASASE  277 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhcc-CCcEEEEechhhhhccc
Confidence            48899999974   4556677777889999999999866655555555444444 665 5778899986543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.54  E-value=0.053  Score=45.34  Aligned_cols=67  Identities=13%  Similarity=0.068  Sum_probs=42.1

Q ss_pred             ceeEEEEeCCCchh---hHHHHHHHHHhc---CEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-------EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD---FSSEVSTAVRLC---DGTIIVVDCVEGICAQTQVALKQAWLEKIQP-------ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~---~~~~~~~~l~~~---d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-------ilv~NK~Dl~  106 (161)
                      ++.+++|||||...   +.......+..+   .-.++|++++.+.......++.+....++|.       =++++|+|-.
T Consensus       215 ~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt  294 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEA  294 (374)
T ss_pred             CCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccC
Confidence            56899999999753   333333444443   3458999998766555555555544433332       4788999964

>PRK13796 GTPase YqeH; Provisional

Probab=95.36  E-value=0.033  Score=46.29  Aligned_cols=52  Identities=23%  Similarity=0.098  Sum_probs=35.0

Q ss_pred             hhHHHHHHHHHhcC-EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          53 DFSSEVSTAVRLCD-GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        53 ~~~~~~~~~l~~~d-~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +|.. +...+...+ .+++|+|+.+....+...+.+..  .+.|+++|+||+|+..
T Consensus        58 ~~~~-~l~~i~~~~~lIv~VVD~~D~~~s~~~~L~~~~--~~kpviLViNK~DLl~  110 (365)
T PRK13796         58 DFLK-LLNGIGDSDALVVNVVDIFDFNGSWIPGLHRFV--GNNPVLLVGNKADLLP  110 (365)
T ss_pred             HHHH-HHHhhcccCcEEEEEEECccCCCchhHHHHHHh--CCCCEEEEEEchhhCC
Confidence            4544 555566666 88999999875544433333322  3789999999999964

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=95.23  E-value=0.095  Score=41.41  Aligned_cols=62  Identities=21%  Similarity=0.258  Sum_probs=45.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEEC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNK  102 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK  102 (161)
                      .+-++|+|||.... ...+......+|++|+|+..............+.+...+.+++ +|+|+
T Consensus       212 ~yD~ViiD~pp~~~-~~d~~~~~~~~d~vilV~~~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       212 DYDVVIVDTPSAEH-SSDAQIVATRARGTLIVSRVNETRLHELTSLKEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             cCCEEEEeCCCccc-ccHHHHHHHhCCeEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence            47799999998633 2345556778999999998875544555666677777788887 67775

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=95.06  E-value=0.22  Score=38.15  Aligned_cols=66  Identities=15%  Similarity=-0.007  Sum_probs=46.8

Q ss_pred             eeEEEEeCCCchhhH-HHHHHHHHh--cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          41 YLINLIDSPGHVDFS-SEVSTAVRL--CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~-~~~~~~l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      +-++++|||...... ..+...+..  +|.+++|+.............++.+...+.++ -+|+|++...
T Consensus       114 yD~IIiD~pp~~~~~~~l~~~~l~~~~~~~vllV~~p~~~s~~~~~~~l~~l~~~~~~~~glVlN~~~~~  183 (217)
T cd02035         114 YDVIVFDTAPTGHTLRLLVRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVVNRVLPA  183 (217)
T ss_pred             CCEEEECCCCchHHHHHHHHHHccCCCceEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcCc
Confidence            889999999753322 223444444  47899999887655566677778888878776 5899998754

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>CHL00175 minD septum-site determining protein; Validated

Probab=95.05  E-value=0.083  Score=41.89  Aligned_cols=64  Identities=17%  Similarity=0.141  Sum_probs=42.8

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCC-cEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQ-PILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl  105 (161)
                      .+.++++|||+.-  ......++..+|.+++|++.+...-.......+.+...+.+ .-+++|+++.
T Consensus       126 ~yD~VIiDtpp~~--~~~~~~~l~~aD~viiV~~p~~~si~~~~~~~~~l~~~~~~~~~lvvN~~~~  190 (281)
T CHL00175        126 GYDYILIDCPAGI--DVGFINAIAPAQEAIVVTTPEITAIRDADRVAGLLEANGIYNVKLLVNRVRP  190 (281)
T ss_pred             CCCEEEEeCCCCC--CHHHHHHHHhcCeeEEEcCCChHHHHHHHHHHHHHHHcCCCceEEEEeccCh
Confidence            5789999999863  34556777889999999977632223333444555544443 4588999974

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=94.99  E-value=0.093  Score=40.65  Aligned_cols=64  Identities=20%  Similarity=0.262  Sum_probs=43.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCC-CcEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~-p~ilv~NK~Dl  105 (161)
                      .+.++++|||+...  ..+..++..+|.+|+|+.+....-.....+++.+...+. +..+++|+++.
T Consensus       111 ~~D~viiD~p~~~~--~~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~iviN~~~~  175 (261)
T TIGR01968       111 EFDYVIIDCPAGIE--SGFRNAVAPADEAIVVTTPEVSAVRDADRVIGLLEAKGIEKIHLIVNRLRP  175 (261)
T ss_pred             hCCEEEEeCCCCcC--HHHHHHHHhCCeEEEEcCCCcHHHHHHHHHHHHHHHcCCCceEEEEeCcCc
Confidence            47899999998643  345567889999999998763322333444444444443 56689999975

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>KOG2423|consensus

Probab=94.76  E-value=0.069  Score=45.08  Aligned_cols=48  Identities=21%  Similarity=0.203  Sum_probs=35.3

Q ss_pred             HHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc--CCCcEEEEECCcchh
Q psy2609          60 TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE--KIQPILVLNKIDRLI  107 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~  107 (161)
                      ..+..+|++|-|+|+.++.......+-.++++.  .+-+|+|+|||||+.
T Consensus       209 KViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVP  258 (572)
T KOG2423|consen  209 KVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVP  258 (572)
T ss_pred             HhhcccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeecccccc
Confidence            334457899999999987766556665666553  445689999999974

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=94.70  E-value=0.054  Score=51.49  Aligned_cols=65  Identities=20%  Similarity=0.216  Sum_probs=38.3

Q ss_pred             eEEEEeCCCch--------hhHHHHHHHH---------HhcCEEEEEEeCCCCCChhHH---HHH--------HHH--HH
Q psy2609          42 LINLIDSPGHV--------DFSSEVSTAV---------RLCDGTIIVVDCVEGICAQTQ---VAL--------KQA--WL   91 (161)
Q Consensus        42 ~i~iiDTpG~~--------~~~~~~~~~l---------~~~d~~ilVvd~~~~~~~~~~---~~~--------~~~--~~   91 (161)
                      +-++|||+|..        .-...+...+         +-.+|+|+++|+.+-......   .+.        +..  ..
T Consensus       162 ~avliDtaG~y~~~~~~~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg  241 (1169)
T TIGR03348       162 EAVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLG  241 (1169)
T ss_pred             CEEEEcCCCccccCCCcccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            67899999921        1112222222         236999999998744321111   111        111  12


Q ss_pred             cCCCcEEEEECCcch
Q psy2609          92 EKIQPILVLNKIDRL  106 (161)
Q Consensus        92 ~~~p~ilv~NK~Dl~  106 (161)
                      ..+|+-++++|||+.
T Consensus       242 ~~~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       242 ARFPVYLVLTKADLL  256 (1169)
T ss_pred             CCCCEEEEEecchhh
Confidence            479999999999986

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=94.68  E-value=0.14  Score=39.80  Aligned_cols=64  Identities=9%  Similarity=0.023  Sum_probs=42.2

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHH------HcCCCcEEEEECCc
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW------LEKIQPILVLNKID  104 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~------~~~~p~ilv~NK~D  104 (161)
                      +.+-++||||||...  ..+..++..+|.+|+.+.++...-......+..+.      ..++|..+++|.++
T Consensus        82 ~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps~~d~~~~~~~~~~v~~~~~~~~~~l~~~iv~~~~~  151 (231)
T PRK13849         82 QGFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLTPLDIDEALSTYRYVIELLLSENLAIPTAILRQRVP  151 (231)
T ss_pred             CCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCcHHHHHHHHHHHHHHHHHHHHhCCCCCeEEEEEecc
Confidence            368899999999753  55778899999999888765221111112221111      23677789999986

>KOG1547|consensus

Probab=94.54  E-value=0.55  Score=37.34  Aligned_cols=71  Identities=20%  Similarity=0.221  Sum_probs=44.6

Q ss_pred             CCceeEEEEeCCCchhh--------------HHHHHHHHHh--------------cCEEEEEEeCC-CCCChhHHHHHHH
Q psy2609          38 PEEYLINLIDSPGHVDF--------------SSEVSTAVRL--------------CDGTIIVVDCV-EGICAQTQVALKQ   88 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~--------------~~~~~~~l~~--------------~d~~ilVvd~~-~~~~~~~~~~~~~   88 (161)
                      +-..+++++||||+-++              ..+-..|++.              +.++++.+..+ ..+.+-+.+.+..
T Consensus       101 gVklkltviDTPGfGDqInN~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkr  180 (336)
T KOG1547|consen  101 GVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKR  180 (336)
T ss_pred             ceEEEEEEecCCCcccccCccchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHH
Confidence            44678999999997432              1122223321              46888888876 3455666666554


Q ss_pred             HHHcCCCcEEEEECCcchhhh
Q psy2609          89 AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.+ -+.++-|+-|.|...-+
T Consensus       181 Lt~-vvNvvPVIakaDtlTle  200 (336)
T KOG1547|consen  181 LTE-VVNVVPVIAKADTLTLE  200 (336)
T ss_pred             Hhh-hheeeeeEeecccccHH
Confidence            432 35667789999976544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.54  E-value=0.26  Score=40.29  Aligned_cols=65  Identities=22%  Similarity=0.293  Sum_probs=37.7

Q ss_pred             CceeEEEEeCCCchh----hHHHHHHHHH--------hcCEEEEEEeCCCCCChhHHHHHHHHHHcCC-CcEEEEECCcc
Q psy2609          39 EEYLINLIDSPGHVD----FSSEVSTAVR--------LCDGTIIVVDCVEGICAQTQVALKQAWLEKI-QPILVLNKIDR  105 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~----~~~~~~~~l~--------~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~-p~ilv~NK~Dl  105 (161)
                      .++.++++||||...    ...+.....+        ..+..++|+|++.+..... ......  ..+ +.-+++||+|.
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~-~a~~f~--~~~~~~giIlTKlD~  271 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALS-QAKAFH--EAVGLTGIILTKLDG  271 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHH-HHHHHH--hhCCCCEEEEECCCC
Confidence            357899999999642    1223333322        2567899999985432211 221111  123 34689999996


Q ss_pred             h
Q psy2609         106 L  106 (161)
Q Consensus       106 ~  106 (161)
                      .
T Consensus       272 t  272 (318)
T PRK10416        272 T  272 (318)
T ss_pred             C
Confidence            4

>KOG1424|consensus

Probab=94.46  E-value=0.082  Score=45.72  Aligned_cols=54  Identities=17%  Similarity=0.103  Sum_probs=37.0

Q ss_pred             HHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH--cCCCcEEEEECCcchhhh
Q psy2609          56 SEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL--EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        56 ~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++....+..+|++|.++|+.+..-.....+-.+...  ..+..+|++||.||...+
T Consensus       166 RQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~~  221 (562)
T KOG1424|consen  166 RQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPPE  221 (562)
T ss_pred             HHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCHH
Confidence            345667778999999999997764333233233332  245678999999998765

>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=94.17  E-value=0.21  Score=37.92  Aligned_cols=66  Identities=23%  Similarity=0.165  Sum_probs=37.3

Q ss_pred             ceeEEEEeCCCchhh----HHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDF----SSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.++||||||....    .......+.  ..+-+++|++++.+... ...........+ +-=++++|+|-..
T Consensus        83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~-~~~~~~~~~~~~-~~~lIlTKlDet~  154 (196)
T PF00448_consen   83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQED-LEQALAFYEAFG-IDGLILTKLDETA  154 (196)
T ss_dssp             TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHH-HHHHHHHHHHSS-TCEEEEESTTSSS
T ss_pred             CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHH-HHHHHHHhhccc-CceEEEEeecCCC
Confidence            467999999996432    223333333  35788999999854322 122323222223 3356799999743

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 ....

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.14  E-value=0.26  Score=42.10  Aligned_cols=62  Identities=18%  Similarity=0.309  Sum_probs=37.4

Q ss_pred             eeEEEEeCCCchhhHHH----H--HHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcc
Q psy2609          41 YLINLIDSPGHVDFSSE----V--STAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR  105 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~----~--~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  105 (161)
                      +.++++||||.......    .  ...+..+|.+++|+|++.+  .......+. ....+++ -+++||+|-
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g--q~av~~a~~-F~~~l~i~gvIlTKlD~  244 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG--QQAKNQAKA-FHEAVGIGGIIITKLDG  244 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc--HHHHHHHHH-HHhcCCCCEEEEecccC
Confidence            47999999996543222    1  2234457899999999765  222222222 1223555 478899995

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=94.11  E-value=0.015  Score=44.31  Aligned_cols=60  Identities=18%  Similarity=0.124  Sum_probs=32.5

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+.+++|.|.-...   ..+....+..+.|+|+..+....    .......+.|.++++||+|+..
T Consensus       103 ~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~----~~~~~~~~~a~iiv~NK~Dl~~  162 (207)
T TIGR00073       103 IDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKP----LKYPGMFKEADLIVINKADLAE  162 (207)
T ss_pred             CCEEEEecCCCcCCC---cccccccCeEEEEEecCcccchh----hhhHhHHhhCCEEEEEHHHccc
Confidence            466777777721000   01112245556677776433211    1222234578899999999974

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR00092 GTP-binding protein YchF

Probab=93.90  E-value=0.067  Score=44.65  Aligned_cols=74  Identities=15%  Similarity=0.125  Sum_probs=48.1

Q ss_pred             ccccccccCCchhHHH------cCCccccceEEEEeecCC---------C-CCCceeEEEEeCCCchh-------hHHHH
Q psy2609           2 LCMVSSYMDSRKDEQE------RGITMKSSSISLYYKDNK---------D-TPEEYLINLIDSPGHVD-------FSSEV   58 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~------~giti~~~~~~~~~~~~~---------~-~~~~~~i~iiDTpG~~~-------~~~~~   58 (161)
                      |+|||++++.+.....      +..|++.....+.+...-         + .....++.++|.||...       +....
T Consensus        12 n~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~Glgn~f   91 (368)
T TIGR00092        12 NVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEGLGNQF   91 (368)
T ss_pred             CCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchhcccCcchHH
Confidence            7899998766543332      444555555444443100         0 11234789999999743       45567


Q ss_pred             HHHHHhcCEEEEEEeCC
Q psy2609          59 STAVRLCDGTIIVVDCV   75 (161)
Q Consensus        59 ~~~l~~~d~~ilVvd~~   75 (161)
                      ...++.+|+++.|+++.
T Consensus        92 L~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        92 LANIREVDIIQHVVRCF  108 (368)
T ss_pred             HHHHHhCCEEEEEEeCC
Confidence            78899999999999985

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.

>TIGR00959 ffh signal recognition particle protein

Probab=93.87  E-value=0.25  Score=42.06  Aligned_cols=63  Identities=22%  Similarity=0.368  Sum_probs=35.5

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHH--HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTA--VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~--l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  105 (161)
                      .+.++|+||||...    ........  .-..+.+++|+|+..+  ........... ..+++ =++.||+|-
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg--q~~~~~a~~f~-~~v~i~giIlTKlD~  251 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG--QDAVNTAKTFN-ERLGLTGVVLTKLDG  251 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch--HHHHHHHHHHH-hhCCCCEEEEeCccC
Confidence            46799999999532    22222111  2236788999998743  22222222221 23454 377999994

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.

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=93.72  E-value=0.11  Score=38.23  Aligned_cols=64  Identities=17%  Similarity=0.112  Sum_probs=43.6

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCC---CcEEEEECCcch
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKI---QPILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~---p~ilv~NK~Dl~  106 (161)
                      +.+.++|||+.-...  +...+..+|.+|++++.+...-.....+...+...+.   ..-+|+||++..
T Consensus        95 yD~iiiD~~~~~~~~--~~~~l~~ad~viv~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~~  161 (195)
T PF01656_consen   95 YDYIIIDTPPGLSDP--VRNALAAADYVIVPIEPDPSSIEGAERLIELLKRLGKKLKIIGVVINRVDPG  161 (195)
T ss_dssp             SSEEEEEECSSSSHH--HHHHHHTSSEEEEEEESSHHHHHHHHHHHHHHHHHTHTEEEEEEEEEEETSC
T ss_pred             ccceeecccccccHH--HHHHHHhCceeeeecCCcHHHHHHHHHHHHHHHHhccccceEEEEEeeeCCC
Confidence            789999999965433  6778889999999999863222222334445554442   235799999764

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>PRK14974 cell division protein FtsY; Provisional

Probab=93.56  E-value=0.42  Score=39.46  Aligned_cols=65  Identities=23%  Similarity=0.248  Sum_probs=37.9

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      ++.+++|||||...    +........+  ..|..++|+|+..+-  ........... .++ --+++||+|...
T Consensus       222 ~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~--d~~~~a~~f~~-~~~~~giIlTKlD~~~  293 (336)
T PRK14974        222 GIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGN--DAVEQAREFNE-AVGIDGVILTKVDADA  293 (336)
T ss_pred             CCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccch--hHHHHHHHHHh-cCCCCEEEEeeecCCC
Confidence            45699999999643    2233333222  368899999997542  22222222111 233 468899999753

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=93.41  E-value=0.31  Score=37.48  Aligned_cols=64  Identities=25%  Similarity=0.203  Sum_probs=40.6

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH-HHHHHHHH--cCCCcEEEEECCcch
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-VALKQAWL--EKIQPILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~-~~~~~~~~--~~~p~ilv~NK~Dl~  106 (161)
                      +-+.++|||+.  +...+..++..+|.+++++..+........ ........  ...+.-+++|++|..
T Consensus       115 ~D~viiD~pp~--~~~~~~~~l~~ad~vii~~~~~~~s~~~~~~~~~~l~~~~~~~~~~~iv~n~~~~~  181 (246)
T TIGR03371       115 RDWVLIDVPRG--PSPITRQALAAADLVLVVVNADAACYATLHQQALALFAGSGPRIGPHFLINQFDPA  181 (246)
T ss_pred             CCEEEEECCCC--chHHHHHHHHhCCeEEEEeCCCHHHHHHHHHHHHHHhhcccccccceEEeeccCcc
Confidence            36999999994  455677889999999999987521111111 11122221  234456899999854

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=93.34  E-value=0.3  Score=38.39  Aligned_cols=65  Identities=22%  Similarity=0.210  Sum_probs=39.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH----HHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA----WLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~----~~~~~p~i-lv~NK~Dl  105 (161)
                      .+-+.|+||||.... ..+..++..||.+|+++.++...-......++.+    ...+++.+ +++|+++.
T Consensus       115 ~yD~vIIDt~g~~~~-~~~~~al~~aD~vlip~~p~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~  184 (267)
T cd02032         115 EYDVILFDVLGDVVC-GGFAAPLNYADYALIVTDNDFDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK  184 (267)
T ss_pred             cCCEEEEeCCCCccc-ccchhhhhhcCEEEEEecCCcccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence            578999999986321 1234558899999999877532212222222222    12355544 68999984

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>KOG0410|consensus

Probab=93.32  E-value=0.13  Score=42.44  Aligned_cols=101  Identities=20%  Similarity=0.063  Sum_probs=60.2

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~~   68 (161)
                      ||||++++..+..     +..--.|.+........      ..+..+.+.||-|+-.        -...+......+|.+
T Consensus       188 NaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~L------psg~~vlltDTvGFisdLP~~LvaAF~ATLeeVaeadll  261 (410)
T KOG0410|consen  188 NAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHL------PSGNFVLLTDTVGFISDLPIQLVAAFQATLEEVAEADLL  261 (410)
T ss_pred             CccHHHHHHHHHhhhcCccchhheeccchhhhccC------CCCcEEEEeechhhhhhCcHHHHHHHHHHHHHHhhcceE
Confidence            8999998765531     11112223322221111      1245789999999732        122344555678999


Q ss_pred             EEEEeCCCCC-ChhHHHHHHHHHHcCCC-------cEEEEECCcchhh
Q psy2609          69 IIVVDCVEGI-CAQTQVALKQAWLEKIQ-------PILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~-~~~~~~~~~~~~~~~~p-------~ilv~NK~Dl~~~  108 (161)
                      +-|+|.+.+. ..|.+..+..+...++|       +|=|=||+|....
T Consensus       262 lHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~  309 (410)
T KOG0410|consen  262 LHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEED  309 (410)
T ss_pred             EEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccc
Confidence            9999998654 34445556666666665       3457888887643

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=93.30  E-value=0.088  Score=40.75  Aligned_cols=74  Identities=11%  Similarity=-0.098  Sum_probs=40.8

Q ss_pred             ccccccccCCchhHH---HcCCccccceE-EEEeecCCCCCCceeEEEEeCCCchh------hHHHHHHHHHh--cCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ---ERGITMKSSSI-SLYYKDNKDTPEEYLINLIDSPGHVD------FSSEVSTAVRL--CDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~---~~giti~~~~~-~~~~~~~~~~~~~~~i~iiDTpG~~~------~~~~~~~~l~~--~d~~i   69 (161)
                      ++||+++++.+-...   .-+-+....+. -+.|...-..+++..+.++||||...      .......++..  ++++|
T Consensus        17 ~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~~l~~llss~~i   96 (224)
T cd01851          17 SSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLFALATLLSSVLI   96 (224)
T ss_pred             CCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHHHHHHHHhCEEE
Confidence            578999987765431   00111111111 11222111112457999999999753      23345556665  89999


Q ss_pred             EEEeCC
Q psy2609          70 IVVDCV   75 (161)
Q Consensus        70 lVvd~~   75 (161)
                      +.++..
T Consensus        97 ~n~~~~  102 (224)
T cd01851          97 YNSWET  102 (224)
T ss_pred             EeccCc
Confidence            888875

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

>PRK10867 signal recognition particle protein; Provisional

Probab=93.20  E-value=0.5  Score=40.32  Aligned_cols=63  Identities=22%  Similarity=0.341  Sum_probs=35.3

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  105 (161)
                      .+.++|+||||...    ..........  ..+.+++|+|+..+  ........... ..+++ -+++||+|-
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g--q~av~~a~~F~-~~~~i~giIlTKlD~  252 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG--QDAVNTAKAFN-EALGLTGVILTKLDG  252 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH--HHHHHHHHHHH-hhCCCCEEEEeCccC
Confidence            46799999999532    2222222222  45788999998632  22222222221 23444 477899994

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=93.12  E-value=0.53  Score=35.68  Aligned_cols=57  Identities=28%  Similarity=0.320  Sum_probs=36.0

Q ss_pred             eEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEE
Q psy2609          42 LINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLN  101 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~N  101 (161)
                      -++++|||..... ..+...+..+|.+|+|+.............+..++  +.+++ +|+|
T Consensus       150 D~IiiD~pp~~~~-~~~~~l~~~aD~viiV~~~~~~~~~~~~~~~~~l~--~~~~~G~v~N  207 (207)
T TIGR03018       150 RIIIIDTPPLLVF-SEARALARLVGQIVLVVEEGRTTQEAVKEALSALE--SCKVLGVVLN  207 (207)
T ss_pred             CEEEEECCCCcch-hHHHHHHHhCCEEEEEEECCCCCHHHHHHHHHHhc--CCCeEEEEeC
Confidence            5899999876432 23444456789999999887554444455555554  55665 4444

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=92.85  E-value=0.03  Score=44.89  Aligned_cols=41  Identities=17%  Similarity=0.230  Sum_probs=27.0

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV   52 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~   52 (161)
                      |+||+++++.+...+      .+|+|....   +...       +.++.++||||..
T Consensus       131 nvGKSsliN~l~~~~~~~~~~~~g~T~~~~---~~~~-------~~~~~l~DtPGi~  177 (287)
T PRK09563        131 NVGKSTLINRLAGKKIAKTGNRPGVTKAQQ---WIKL-------GKGLELLDTPGIL  177 (287)
T ss_pred             CCCHHHHHHHHhcCCccccCCCCCeEEEEE---EEEe-------CCcEEEEECCCcC
Confidence            789999988875443      356665532   1111       2368899999974

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.81  E-value=0.51  Score=41.43  Aligned_cols=65  Identities=17%  Similarity=0.212  Sum_probs=36.3

Q ss_pred             ceeEEEEeCCCchhhHHHHH---HHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVS---TAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~---~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+.++||||||.........   ..+.  .....++|++++.+...... .++.... ..+.-+++||+|..
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~e-ii~~f~~-~~~~gvILTKlDEt  497 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDE-VVRRFAH-AKPQGVVLTKLDET  497 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHH-HHHHHHh-hCCeEEEEecCcCc
Confidence            57899999999643211101   1111  12356788888754433332 2232222 23567999999974

>PRK11670 antiporter inner membrane protein; Provisional

Probab=92.69  E-value=0.4  Score=40.01  Aligned_cols=67  Identities=9%  Similarity=-0.006  Sum_probs=42.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-+.++|||..-.....+...+-.+|++++|.-............+....+.++|++ +|.|+.+..
T Consensus       215 ~yDyvIID~PPg~gd~~l~~~~l~aad~viiV~tp~~~s~~da~~~i~~~~~~~~~ilGiV~Nm~~~~  282 (369)
T PRK11670        215 DLDYLVLDMPPGTGDIQLTLAQNIPVTGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHI  282 (369)
T ss_pred             cCCEEEEeCCCCCchHHHHHhhhccCCeEEEEecCchhHHHHHHHHHHHHhccCCCeEEEEEcCCccc
Confidence            5779999998753322234445556899999886643222223334455555688876 789998743

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=92.68  E-value=0.57  Score=39.90  Aligned_cols=63  Identities=29%  Similarity=0.451  Sum_probs=34.9

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHH--HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTA--VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~--l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl  105 (161)
                      .+.+.|+||+|-..    +..+....  .-..|-+++|+|+.-|   |+...........+++- ++++|+|-
T Consensus       182 ~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~G---QdA~~~A~aF~e~l~itGvIlTKlDG  251 (451)
T COG0541         182 GYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIG---QDAVNTAKAFNEALGITGVILTKLDG  251 (451)
T ss_pred             CCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccc---hHHHHHHHHHhhhcCCceEEEEcccC
Confidence            46899999999543    33332222  2235789999999743   23222222223344543 55666663

>PRK10818 cell division inhibitor MinD; Provisional

Probab=92.63  E-value=0.57  Score=36.75  Aligned_cols=65  Identities=17%  Similarity=0.193  Sum_probs=41.8

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH-------c--CCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL-------E--KIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~-------~--~~p~ilv~NK~Dl~  106 (161)
                      .+-++++|||+...  ......+..+|.+++++++....-.....++..+..       .  +.+..+++|+++..
T Consensus       113 ~yd~viiD~p~~~~--~~~~~~l~~ad~vivv~~p~~~sl~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~~  186 (270)
T PRK10818        113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPG  186 (270)
T ss_pred             CCCEEEEeCCCCcc--HHHHHHHHhCCeEEEEcCCCchHHHhHHHHHHHHHHhhccccccccccceEEEEeccCHh
Confidence            57899999988653  345667899999999998873322222333333321       1  22346788998853

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=92.50  E-value=0.45  Score=43.12  Aligned_cols=66  Identities=12%  Similarity=-0.008  Sum_probs=45.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-+++||||+..... .+......+|++|+|+.............++.+...+.+++ +|+|++|..
T Consensus       655 ~yD~IiID~pp~~~~~-d~~~l~~~~D~vl~v~~~~~~~~~~~~~~~~~l~~~~~~~~GvvlN~~~~~  721 (754)
T TIGR01005       655 YSDCVVVDVGTADPVR-DMRAAARLAIIMLLVTAYDRVVVECGRADAQGISRLNGEVTGVFLNMLDPN  721 (754)
T ss_pred             hCCEEEEcCCCcchhH-HHHHhhhhCCeEEEEEEeCceeHHHHHHHHHHHHhcCCceEEEEecCCChh
Confidence            5789999999975432 23334457899999988654444445556666666676665 899999854

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=92.50  E-value=0.062  Score=42.84  Aligned_cols=40  Identities=20%  Similarity=0.246  Sum_probs=25.7

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH   51 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~   51 (161)
                      |+||+++++.+...      ..+|+|......  ..        ...+.++||||.
T Consensus       128 nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~--~~--------~~~~~l~DtPG~  173 (276)
T TIGR03596       128 NVGKSTLINRLAGKKVAKVGNRPGVTKGQQWI--KL--------SDGLELLDTPGI  173 (276)
T ss_pred             CCCHHHHHHHHhCCCccccCCCCCeecceEEE--Ee--------CCCEEEEECCCc
Confidence            78999998776533      245556543211  11        226899999998

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.

>KOG1707|consensus

Probab=92.35  E-value=0.18  Score=44.29  Aligned_cols=47  Identities=23%  Similarity=0.141  Sum_probs=31.1

Q ss_pred             HhcCEEEEEEeCCCCCChhHHH-HH-HHHHHcCCCcEEEEECCcchhhh
Q psy2609          63 RLCDGTIIVVDCVEGICAQTQV-AL-KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        63 ~~~d~~ilVvd~~~~~~~~~~~-~~-~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+|++.++||........... .. ..-...+.|+++|..|+|+-...
T Consensus       494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~~~~Pc~~va~K~dlDe~~  542 (625)
T KOG1707|consen  494 AACDVACLVYDSSNPRSFEYLAEVYNKYFDLYKIPCLMVATKADLDEVP  542 (625)
T ss_pred             ceeeeEEEecccCCchHHHHHHHHHHHhhhccCCceEEEeeccccchhh
Confidence            6789999999988443322211 11 11122689999999999996543

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=92.12  E-value=0.46  Score=38.53  Aligned_cols=63  Identities=16%  Similarity=0.076  Sum_probs=40.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      .+.++++|||+...  ..+...+..+|.+++|++.+...-.....+++.+...+..+-+++|+..
T Consensus       204 ~~D~VIID~p~~~~--~~~~~~L~~AD~vliV~~~~~~sl~~a~r~l~~l~~~~~~~~lVv~~~~  266 (322)
T TIGR03815       204 GGDLVVVDLPRRLT--PAAETALESADLVLVVVPADVRAVAAAARVCPELGRRNPDLRLVVRGPA  266 (322)
T ss_pred             cCCEEEEeCCCCCC--HHHHHHHHHCCEEEEEcCCcHHHHHHHHHHHHHHhhhCCCeEEEEeCCC
Confidence            47899999999753  4477889999999999977532222223344444444434456677643

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=92.04  E-value=0.7  Score=41.89  Aligned_cols=65  Identities=12%  Similarity=0.211  Sum_probs=45.6

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl  105 (161)
                      .+-++|+|||..-..... ......+|++|+|+.............++.+...+.+++ +|+|+++.
T Consensus       640 ~yD~IIIDtPP~~~~~Da-~~la~~ad~~llVvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~~~~  705 (726)
T PRK09841        640 HYDLVIVDTPPMLAVSDA-AVVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIK  705 (726)
T ss_pred             cCCEEEEeCCCccccchH-HHHHHhCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCceEEEEEeCccc
Confidence            477999999986543222 333467899999987654444445556666667788877 88999984

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=92.03  E-value=0.4  Score=37.67  Aligned_cols=65  Identities=15%  Similarity=0.111  Sum_probs=38.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH----HHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA----WLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~----~~~~~p~i-lv~NK~Dl  105 (161)
                      .+-+.||||||.-... .+...+..||.+|+++.+....-.....++..+    ...+++++ ++.|+.+.
T Consensus       117 ~yD~viIDt~g~~~~~-~~~~~l~~AD~viip~~~~~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~  186 (270)
T PRK13185        117 DYDVILFDVLGDVVCG-GFAAPLQYADYALIVTANDFDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSAG  186 (270)
T ss_pred             cCCEEEEecCCCcccC-cccchhhhCcEEEEEecCchhhHHHHHHHHHHHHhhhhccCCCceEEEEeccCh
Confidence            5789999999863211 234558889999999976422111112222222    23456654 78999774

>COG1162 Predicted GTPases [General function prediction only]

Probab=91.86  E-value=0.72  Score=37.47  Aligned_cols=53  Identities=36%  Similarity=0.288  Sum_probs=35.7

Q ss_pred             HHHHHHHhcCEEEEEEeCCCCCC--hhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          57 EVSTAVRLCDGTIIVVDCVEGIC--AQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        57 ~~~~~l~~~d~~ilVvd~~~~~~--~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+.-..+.|-+++|+.+..+..  ......+-.+...++..++|+||+||...+
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~gi~pvIvlnK~DL~~~~  126 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAGGIEPVIVLNKIDLLDDE  126 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHcCCcEEEEEEccccCcch
Confidence            34444455788888888775432  222344555667799999999999998654

>PRK11519 tyrosine kinase; Provisional

Probab=91.73  E-value=0.89  Score=41.17  Aligned_cols=65  Identities=22%  Similarity=0.276  Sum_probs=47.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl  105 (161)
                      .+-++|+|||..-.. ..+....+.+|++++|+.............++.+...+.+++ +|+|+++.
T Consensus       635 ~yD~ViiDtpP~~~v-~Da~~l~~~~d~~l~Vvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~v~~  700 (719)
T PRK11519        635 NYDLVLIDTPPILAV-TDAAIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFR  700 (719)
T ss_pred             cCCEEEEeCCCcccc-hHHHHHHHHCCeEEEEEeCCCCCHHHHHHHHHHHHhCCCCeEEEEEeCCcc
Confidence            578999999986432 234455678999999998765444445556666777789988 89999974

>PRK13796 GTPase YqeH; Provisional

Probab=91.20  E-value=0.059  Score=44.82  Aligned_cols=41  Identities=22%  Similarity=0.197  Sum_probs=25.7

Q ss_pred             ccccccccCCchhH-----------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch
Q psy2609           2 LCMVSSYMDSRKDE-----------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV   52 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~   52 (161)
                      |+||+++++.+...           ..+|.|.+...+.  +.        -...++||||..
T Consensus       170 NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~--l~--------~~~~l~DTPGi~  221 (365)
T PRK13796        170 NVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIP--LD--------DGSFLYDTPGII  221 (365)
T ss_pred             CCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEE--cC--------CCcEEEECCCcc
Confidence            89999999888532           2345565533222  21        124799999974

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=91.17  E-value=1.8  Score=34.44  Aligned_cols=82  Identities=21%  Similarity=0.169  Sum_probs=50.4

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc---EEEEECCcchhhhhcCChHHH
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP---ILVLNKIDRLILEMKLSPLDI  117 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~---ilv~NK~Dl~~~~~~~~~~~~  117 (161)
                      +-+.++|||+--  ...+...+..+|.+|+|.......-.......+++...+.+.   .+++|+++-...     ..+.
T Consensus       113 ~D~iliD~~aGl--~~~~~~~~~~sd~~viVt~pe~~si~~A~~~i~~~~~~~~~~~~~~vV~N~v~~~~e-----~~~~  185 (262)
T COG0455         113 YDYILIDTGAGL--SRDTLSFILSSDELVIVTTPEPTSITDAYKTIKILSKLGLDLLGRRVVLNRVRSTKE-----GVDV  185 (262)
T ss_pred             CCEEEEeCCCCc--cHHHHHHHHhcCcEEEEeCCCcchHHHHHHHHHHHHHcCCccccceEEEEecccccc-----hhHH
Confidence            478999999853  334455666669999999765322233344456666666664   389999983322     2334


Q ss_pred             HHhHHHHHHHHH
Q psy2609         118 YVHLSQLLEQVN  129 (161)
Q Consensus       118 ~~~l~~~~~~~~  129 (161)
                      ...+.++..+++
T Consensus       186 ~~~~~~~~~~~~  197 (262)
T COG0455         186 AALLIQVVKQVP  197 (262)
T ss_pred             HHHHHHHHHhCC
Confidence            445555666655

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=91.02  E-value=0.99  Score=29.91  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=27.9

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+.+.++|+|+...  ......+..+|.++++++.+.
T Consensus        39 ~~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~~~~   73 (104)
T cd02042          39 QYDYIIIDTPPSLG--LLTRNALAAADLVLIPVQPSP   73 (104)
T ss_pred             CCCEEEEeCcCCCC--HHHHHHHHHCCEEEEeccCCH
Confidence            37899999999743  334588899999999998863

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.

>KOG3887|consensus

Probab=90.96  E-value=0.63  Score=37.08  Aligned_cols=70  Identities=19%  Similarity=0.278  Sum_probs=44.0

Q ss_pred             eeEEEEeCCCchhhHHH---HHHHHHhcCEEEEEEeCCCCCChh-HHHHHHHHHH----cCCCcEEEEECCcchhhhh
Q psy2609          41 YLINLIDSPGHVDFSSE---VSTAVRLCDGTIIVVDCVEGICAQ-TQVALKQAWL----EKIQPILVLNKIDRLILEM  110 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~---~~~~l~~~d~~ilVvd~~~~~~~~-~~~~~~~~~~----~~~p~ilv~NK~Dl~~~~~  110 (161)
                      ..+.+||-||+-.+..-   -...++++-+.++|+|+.+..... ...+....+.    .++.+=+++-|.|-...+.
T Consensus        75 inf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQddy~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~  152 (347)
T KOG3887|consen   75 INFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDDYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDF  152 (347)
T ss_pred             cceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHHHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhh
Confidence            46889999999765432   445678889999999997533211 1112222222    2344457899999766543

>COG1161 Predicted GTPases [General function prediction only]

Probab=90.78  E-value=0.069  Score=43.69  Aligned_cols=40  Identities=25%  Similarity=0.254  Sum_probs=26.8

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH   51 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~   51 (161)
                      |+||+++++.+....      .+|+|.....+.+          ...+.++||||.
T Consensus       142 NVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~----------~~~i~LlDtPGi  187 (322)
T COG1161         142 NVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKL----------DDGIYLLDTPGI  187 (322)
T ss_pred             CCcHHHHHHHHhcccceeeCCCCceecceEEEEc----------CCCeEEecCCCc
Confidence            789999988776544      4566654332222          335899999996

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=90.45  E-value=0.061  Score=38.25  Aligned_cols=10  Identities=50%  Similarity=0.773  Sum_probs=9.0

Q ss_pred             eEEEEeCCCc
Q psy2609          42 LINLIDSPGH   51 (161)
Q Consensus        42 ~i~iiDTpG~   51 (161)
                      .+.+|||||.
T Consensus       129 ~~~i~DtpG~  138 (141)
T cd01857         129 TITLCDCPGL  138 (141)
T ss_pred             CEEEEECCCc
Confidence            6899999996

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.

>KOG0780|consensus

Probab=90.09  E-value=1.6  Score=36.96  Aligned_cols=40  Identities=20%  Similarity=0.352  Sum_probs=26.3

Q ss_pred             CCceeEEEEeCCCchhhHHH----HHHHHH--hcCEEEEEEeCCCC
Q psy2609          38 PEEYLINLIDSPGHVDFSSE----VSTAVR--LCDGTIIVVDCVEG   77 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~----~~~~l~--~~d~~ilVvd~~~~   77 (161)
                      .+++-++|+||.|-+.-...    +.....  ..|-+|+|.|+.-|
T Consensus       181 ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiG  226 (483)
T KOG0780|consen  181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIG  226 (483)
T ss_pred             hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEecccc
Confidence            45788999999996543222    222211  25899999999854

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=89.57  E-value=0.8  Score=35.91  Aligned_cols=65  Identities=15%  Similarity=0.114  Sum_probs=37.3

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHH----HcCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW----LEKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~----~~~~p~-ilv~NK~Dl  105 (161)
                      .+.++++||||.-... .+...+..||.+++++......-.....+++.+.    ..++++ .+|+|+++.
T Consensus       115 ~yD~ViID~~~~~~~~-~~~~~l~aAD~vlip~~~~~~sl~~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~  184 (268)
T TIGR01281       115 DYDVILFDVLGDVVCG-GFATPLQYADYALVVAANDFDALFAANRIAASVQEKAKNYDVRLAGIIGNRSDA  184 (268)
T ss_pred             cCCEEEEecCCccccC-ccccchhhcCEEEEEecCchhHHHHHHHHHHHHHHHhhcCCCceEEEEEeCCCh
Confidence            5889999999853211 1224578899999988654211111122222222    234554 378899975

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=89.38  E-value=0.11  Score=43.02  Aligned_cols=42  Identities=19%  Similarity=0.182  Sum_probs=25.8

Q ss_pred             ccccccccCCchhH-----------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh
Q psy2609           2 LCMVSSYMDSRKDE-----------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD   53 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~   53 (161)
                      |+|||++++.+...           ..+|.|.+...  +..        ...+.++||||...
T Consensus       164 nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~--~~~--------~~~~~l~DtPG~~~  216 (360)
T TIGR03597       164 NVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIE--IPL--------DDGHSLYDTPGIIN  216 (360)
T ss_pred             CCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEE--EEe--------CCCCEEEECCCCCC
Confidence            89999998887553           23454543221  111        12467999999754

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.

>PRK10037 cell division protein; Provisional

Probab=89.30  E-value=1.5  Score=34.09  Aligned_cols=58  Identities=17%  Similarity=0.304  Sum_probs=39.7

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc-CCCcEEEEECCc
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE-KIQPILVLNKID  104 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-~~p~ilv~NK~D  104 (161)
                      +.+.+.|||||+..  ...+..++..||.+|+++.+..      ...++..... +....+++|+++
T Consensus       116 ~~yD~iiIDtpp~~--~~~~~~al~aaD~vlvpv~~~~------~~~i~~~~~~~~~~~~i~~n~~~  174 (250)
T PRK10037        116 GRYQWILLDLPRGA--SPLTRQLLSLCDHSLAIVNVDA------NCHIRLHQQALPAGAHILINDLR  174 (250)
T ss_pred             CCCCEEEEECCCCc--cHHHHHHHHhCCEEEEEcCcCH------HHHHhhhccccCCCeEEEEecCC
Confidence            46889999999974  4568889999999999997641      1122322222 334456789886

>KOG1534|consensus

Probab=89.15  E-value=0.64  Score=36.28  Aligned_cols=67  Identities=18%  Similarity=0.249  Sum_probs=41.4

Q ss_pred             eeEEEEeCCCchh------hHHHHHHHHHhcC---EEEEEEeCCCCCChhHHHH------HHHHHHcCCCcEEEEECCcc
Q psy2609          41 YLINLIDSPGHVD------FSSEVSTAVRLCD---GTIIVVDCVEGICAQTQVA------LKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        41 ~~i~iiDTpG~~~------~~~~~~~~l~~~d---~~ilVvd~~~~~~~~~~~~------~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      -.+.++|+||+-.      ..++....+..-+   ++++++|+.- +...+..+      +.......+|.|=|+.||||
T Consensus        98 ddylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf-~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDL  176 (273)
T KOG1534|consen   98 DDYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQF-LVDSTKFISGCLSALSAMISLEVPHINVLSKMDL  176 (273)
T ss_pred             CCEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccch-hhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHH
Confidence            3688999999744      2444555555422   6778888641 11222221      22233458999999999999


Q ss_pred             hhh
Q psy2609         106 LIL  108 (161)
Q Consensus       106 ~~~  108 (161)
                      .+.
T Consensus       177 lk~  179 (273)
T KOG1534|consen  177 LKD  179 (273)
T ss_pred             hhh
Confidence            864

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=89.13  E-value=1.8  Score=36.20  Aligned_cols=108  Identities=15%  Similarity=0.183  Sum_probs=66.6

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH---cCCCcEEEEECCcchhhhhcCChHH
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL---EKIQPILVLNKIDRLILEMKLSPLD  116 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~~~~~~~~  116 (161)
                      .+.++++|-|  .-+...+...+..+|.+++|++.+-..-....+++..+++   ...+..+++||.......   +   
T Consensus       217 ~~~~vV~Dlp--~~~~~~t~~vL~~Sd~iviv~e~sl~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~~~---~---  288 (366)
T COG4963         217 SFDFVVVDLP--NIWTDWTRQVLSGSDEIVIVAEPSLASLRNAKELLDELKRLRPNDPKPILVLNRVGVPKRP---E---  288 (366)
T ss_pred             cCCeEEEcCC--CccchHHHHHHhcCCeEEEEecccHHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCCCCC---C---
Confidence            5679999999  5677889999999999999998764433444555555544   356678999999865433   1   


Q ss_pred             HHHhHHHHHHHHHhhhhhhchhhhhhhhhccCCCCccchhhc
Q psy2609         117 IYVHLSQLLEQVNAVMGELFASQVMDETAVKTTAQDNETKQT  158 (161)
Q Consensus       117 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (161)
                       .+++....+ ++....-.|...-+... .|.+...-|.+-.
T Consensus       289 -~~dl~~~~~-i~~~~~~p~d~~~~~~A-~n~g~~l~E~~~~  327 (366)
T COG4963         289 -PSDLEEILG-IESLLVLPFDPALFGDA-ANNGRMLSEVDPG  327 (366)
T ss_pred             -HHHHHHHhC-CchhccccCCchhhhhh-hccCccccccCCC
Confidence             112222222 23333334554444444 5555555555543

>TIGR00101 ureG urease accessory protein UreG

Probab=88.91  E-value=0.14  Score=38.88  Aligned_cols=59  Identities=31%  Similarity=0.272  Sum_probs=34.8

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc--EEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP--ILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~--ilv~NK~Dl~~  107 (161)
                      ..-..++.|.|..-.. ....  ..+|.+|+|+|+..+......      ...++..  ++++||+|+..
T Consensus        91 ~~D~iiIEt~G~~l~~-~~~~--~l~~~~i~vvD~~~~~~~~~~------~~~qi~~ad~~~~~k~d~~~  151 (199)
T TIGR00101        91 PLEMVFIESGGDNLSA-TFSP--ELADLTIFVIDVAAGDKIPRK------GGPGITRSDLLVINKIDLAP  151 (199)
T ss_pred             CCCEEEEECCCCCccc-ccch--hhhCcEEEEEEcchhhhhhhh------hHhHhhhccEEEEEhhhccc
Confidence            3467788898831100 0111  226889999999865432111      1123344  89999999974

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=88.80  E-value=1.9  Score=34.43  Aligned_cols=65  Identities=15%  Similarity=0.043  Sum_probs=37.4

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHh--cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRL--CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      ++.+.|+||||...    ........+..  .+-.++|+|++..... ...+++...  .+++ =++++|.|-..
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d-~~~~~~~f~--~~~~~~~I~TKlDet~  225 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKD-MIEIITNFK--DIHIDGIVFTKFDETA  225 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHH-HHHHHHHhC--CCCCCEEEEEeecCCC
Confidence            56899999999642    23333333332  4578999998743222 122222221  2333 48899999753

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=88.63  E-value=1.1  Score=35.98  Aligned_cols=65  Identities=22%  Similarity=0.177  Sum_probs=37.8

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH----cCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL----EKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~----~~~p~i-lv~NK~Dl  105 (161)
                      .+-+.++||||.-.. .....++..||.+|+++.+....-.....+.+.+..    .+++.. +++|+.+.
T Consensus       115 ~yD~IiIDt~~~l~~-~a~~aal~~AD~viIp~~p~~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~~~  184 (290)
T CHL00072        115 EYDIILFDVLGDVVC-GGFAAPLNYADYCIIITDNGFDALFAANRIAASVREKARTHPLRLAGLVGNRTSK  184 (290)
T ss_pred             cCCEEEEecCCccee-chhhhhhhcCCEEEEEecCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEeCCCc
Confidence            578999999986211 123355788999999997753211122223322222    233443 78899873

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=88.34  E-value=0.7  Score=35.05  Aligned_cols=66  Identities=15%  Similarity=-0.016  Sum_probs=37.2

Q ss_pred             ceeEEEEeCCCchhhHHH-HHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc----CCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSE-VSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE----KIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~-~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~----~~p~i-lv~NK~Dl  105 (161)
                      .+-++++||||..-.... ...+.+.||.+++++..+...-.....+++.+...    +.++. ++.||++.
T Consensus       116 ~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~  187 (212)
T cd02117         116 DLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSGEFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNT  187 (212)
T ss_pred             CCCEEEEecCCCceecccccccccccCcEEEEEecccHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCC
Confidence            688999999885421111 01112479999999987522111122333333322    44443 89999985

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=87.11  E-value=3.1  Score=32.63  Aligned_cols=67  Identities=13%  Similarity=0.007  Sum_probs=44.0

Q ss_pred             ceeEEEEeCCCchh---hHHHH------HHHHHh--cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD---FSSEV------STAVRL--CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~---~~~~~------~~~l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+-++++|||.-..   +....      ...+..  .+.+++|.....-........+..+...++|+ -+|+||+.-.
T Consensus       124 ~yD~VVvDtpPtg~tlrlL~lp~~l~~~~~~l~d~~~~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v~~~  202 (254)
T cd00550         124 EYDVVVFDTAPTGHTLRLLSLPTVLSWAREILSDPERTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQLLPE  202 (254)
T ss_pred             CCCEEEECCCCcHHHHHHHHhHHHHHHHHHHhcCCcceEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecCccc
Confidence            67899999997422   11111      122332  34788888776544455667777788888887 4899998653

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=87.11  E-value=4  Score=31.95  Aligned_cols=64  Identities=14%  Similarity=0.101  Sum_probs=39.9

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC---hhHHHHH-HHHH--HcCCCcEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC---AQTQVAL-KQAW--LEKIQPILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~---~~~~~~~-~~~~--~~~~p~ilv~NK~Dl  105 (161)
                      .+.+.|+||+|...  .....++..+|.+|+-.-.+..-.   ..+..++ +..+  ...+|.-++.+++.-
T Consensus        83 ~~d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~  152 (231)
T PF07015_consen   83 GFDFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPA  152 (231)
T ss_pred             CCCEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCc
Confidence            46899999999653  335667778999887665442111   1112222 2222  347899999999973

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=86.18  E-value=4.1  Score=34.49  Aligned_cols=63  Identities=19%  Similarity=0.086  Sum_probs=35.4

Q ss_pred             ceeEEEEeCCCch----hhHHHHHHHHHh--cCEEEEEEeCCCCCChhHHHHHHHHHH-cCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHV----DFSSEVSTAVRL--CDGTIIVVDCVEGICAQTQVALKQAWL-EKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~----~~~~~~~~~l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~~-~~~p~-ilv~NK~Dl~  106 (161)
                      .+.++||||||..    ............  .+..++|++++.  ...+  +...... ..+++ -++++|+|-.
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~--~~~d--~~~i~~~f~~l~i~glI~TKLDET  355 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM--KSAD--VMTILPKLAEIPIDGFIITKMDET  355 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc--cHHH--HHHHHHhcCcCCCCEEEEEcccCC
Confidence            4789999999973    233333443333  356677777642  2222  2222222 23444 5889999974

>PRK12288 GTPase RsgA; Reviewed

Probab=85.60  E-value=0.26  Score=40.83  Aligned_cols=15  Identities=20%  Similarity=-0.020  Sum_probs=11.9

Q ss_pred             ccccccccCCchhHH
Q psy2609           2 LCMVSSYMDSRKDEQ   16 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~   16 (161)
                      ++||+++++.+..+.
T Consensus       215 gVGKSTLiN~Ll~~~  229 (347)
T PRK12288        215 GVGKSSLINALLPEA  229 (347)
T ss_pred             CCCHHHHHHHhcccc
Confidence            689999998886543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=85.29  E-value=0.34  Score=37.97  Aligned_cols=15  Identities=13%  Similarity=-0.066  Sum_probs=11.7

Q ss_pred             ccccccccCCchhHH
Q psy2609           2 LCMVSSYMDSRKDEQ   16 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~   16 (161)
                      ++||+++++.+..+.
T Consensus       130 gvGKStLiN~L~~~~  144 (245)
T TIGR00157       130 GVGKSSLINALDPSV  144 (245)
T ss_pred             CCCHHHHHHHHhhhh
Confidence            689999998876543

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []

Probab=85.10  E-value=6  Score=25.82  Aligned_cols=60  Identities=20%  Similarity=0.145  Sum_probs=32.5

Q ss_pred             EEEEeCCCc-hhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECC
Q psy2609          43 INLIDSPGH-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKI  103 (161)
Q Consensus        43 i~iiDTpG~-~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~  103 (161)
                      +.++|+|-- -+-.-.....+. .+++|+|--...-......+....+++.++|++-++--|
T Consensus         3 ~LiiD~PPGTgD~~l~~~~~~~-~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVENM   63 (81)
T PF10609_consen    3 YLIIDLPPGTGDEHLTLMQYLP-IDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVENM   63 (81)
T ss_dssp             EEEEE--SCSSSHHHHHHHHH---SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEECT
T ss_pred             EEEEeCCCCCCcHHHHHHHhCC-CCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEECC
Confidence            568999863 232323334444 688888886654334555667788888899998544333

It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=84.96  E-value=3.9  Score=34.95  Aligned_cols=64  Identities=17%  Similarity=0.195  Sum_probs=35.8

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHh-----cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRL-----CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~-----~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      ++.+++|||||...    ........++.     ..-.+||+|++.+.... .......  ..+++ =++++|+|-.
T Consensus       299 ~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~-~~~~~~f--~~~~~~glIlTKLDEt  372 (432)
T PRK12724        299 GSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHT-LTVLKAY--ESLNYRRILLTKLDEA  372 (432)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHH-HHHHHHh--cCCCCCEEEEEcccCC
Confidence            56889999999742    22223333332     22578999998543222 2222211  23343 4778998863

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=84.63  E-value=3.1  Score=38.08  Aligned_cols=66  Identities=11%  Similarity=0.082  Sum_probs=34.0

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHH--HhcCEEEEEEeCCCCCChhHHHHHHHHHHc-CCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAV--RLCDGTIIVVDCVEGICAQTQVALKQAWLE-KIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l--~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-~~p~-ilv~NK~Dl~  106 (161)
                      ++.++||||||.-.    ...+.....  ...+-.++|+|++.+... -..+....... ..++ =++++|+|-.
T Consensus       263 ~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~-l~~i~~~f~~~~~~~i~glIlTKLDEt  336 (767)
T PRK14723        263 DKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDT-LNEVVHAYRHGAGEDVDGCIITKLDEA  336 (767)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHH-HHHHHHHHhhcccCCCCEEEEeccCCC
Confidence            56799999999321    222222211  123567899999843211 11222211111 1233 4789999964

>TIGR00347 bioD dethiobiotin synthase

Probab=84.32  E-value=3.7  Score=29.59  Aligned_cols=12  Identities=33%  Similarity=0.346  Sum_probs=5.7

Q ss_pred             HHHcCCCcEEEE
Q psy2609          89 AWLEKIQPILVL  100 (161)
Q Consensus        89 ~~~~~~p~ilv~  100 (161)
                      +...+.|+|+|+
T Consensus       125 ~~~~~~~vilV~  136 (166)
T TIGR00347       125 IKLLQLPVILVV  136 (166)
T ss_pred             HHHhCCCEEEEE
Confidence            333455555544

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=84.16  E-value=3.7  Score=35.01  Aligned_cols=65  Identities=15%  Similarity=0.043  Sum_probs=37.7

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHh--cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRL--CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~--~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      ++.++||||||...    ........+..  .+.++||+|++.+... ...+++...  .+++ =++++|+|-..
T Consensus       320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d-~~~i~~~F~--~~~idglI~TKLDET~  391 (436)
T PRK11889        320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKD-MIEIITNFK--DIHIDGIVFTKFDETA  391 (436)
T ss_pred             CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHH-HHHHHHHhc--CCCCCEEEEEcccCCC
Confidence            46899999999632    23333344332  4678899998643211 122332222  2444 48899999753

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=84.04  E-value=7.5  Score=32.77  Aligned_cols=64  Identities=14%  Similarity=0.222  Sum_probs=38.1

Q ss_pred             CceeEEEEeCCCchh----hHHHHHHHHHhc--C-EEEEEEeCCCCCChhHHHHHHHHHHc-CCC-cEEEEECCcch
Q psy2609          39 EEYLINLIDSPGHVD----FSSEVSTAVRLC--D-GTIIVVDCVEGICAQTQVALKQAWLE-KIQ-PILVLNKIDRL  106 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~----~~~~~~~~l~~~--d-~~ilVvd~~~~~~~~~~~~~~~~~~~-~~p-~ilv~NK~Dl~  106 (161)
                      .++.++++||||.-.    ........+...  + -.++|+|++.+..... .+   .... .++ -=++++|.|-.
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~-~~---~~~~~~~~~~~~I~TKlDet  325 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVK-EI---FHQFSPFSYKTVIFTKLDET  325 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHH-HH---HHHhcCCCCCEEEEEeccCC
Confidence            357899999999632    223344444433  3 5889999986532222 22   2222 233 35789999964

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=83.98  E-value=7.9  Score=31.94  Aligned_cols=37  Identities=27%  Similarity=0.190  Sum_probs=25.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHH----H---hcCEEEEEEeCCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAV----R---LCDGTIIVVDCVE   76 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l----~---~~d~~ilVvd~~~   76 (161)
                      ....++|-|.|..+....+....    .   ..|+++.|+|+..
T Consensus        92 ~~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~  135 (341)
T TIGR02475        92 RPDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPA  135 (341)
T ss_pred             CCCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECch
Confidence            35678999999877555444321    1   3478999999974

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=83.90  E-value=3.4  Score=34.90  Aligned_cols=34  Identities=18%  Similarity=0.263  Sum_probs=28.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|||||+..  ...+..++..||.+|+.+.+.
T Consensus       251 ~yD~IiIDtpP~l--~~~t~~al~aAd~viiPv~p~  284 (405)
T PRK13869        251 DYDVVVIDCPPQL--GFLTLSGLCAATSMVITVHPQ  284 (405)
T ss_pred             cCCEEEEECCCch--hHHHHHHHHHcCEEEEecCCc
Confidence            5789999999975  446888999999999998765

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=83.86  E-value=5.4  Score=32.79  Aligned_cols=66  Identities=26%  Similarity=0.246  Sum_probs=41.3

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHH--------hcCEEEEEEeCCCCCChhH---HHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVR--------LCDGTIIVVDCVEGICAQT---QVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~--------~~d~~ilVvd~~~~~~~~~---~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .-..+|-|-|...-.+.+.....        ..|+++-|+|+........   .....++.   .-=++++||+|+....
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia---~AD~ivlNK~Dlv~~~  161 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA---FADVIVLNKTDLVDAE  161 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH---hCcEEEEecccCCCHH
Confidence            56788899997665444333333        2478999999986544332   12222222   2238999999998765

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=83.66  E-value=6  Score=31.42  Aligned_cols=67  Identities=21%  Similarity=0.192  Sum_probs=45.8

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      .+-+.+||||-.---. .....-...|++|+|....+............+.+.+.|++ ++.|+.+...
T Consensus       166 ~~D~vIID~PP~~g~~-d~~i~~~~~~g~viVt~p~~~~~~~v~ka~~~~~~~~~~vlGvv~Nm~~~~~  233 (265)
T COG0489         166 EYDYVIIDTPPGTGDA-DATVLQRIPDGVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFIC  233 (265)
T ss_pred             CCCEEEEeCCCCchHH-HHHHHhccCCeEEEEeCCccchHHHHHHHHHHHHhcCCceEEEEecCccCcc
Confidence            4789999999863211 12222334568888887665555555667788888899998 7899877653

>KOG1533|consensus

Probab=83.60  E-value=7.3  Score=31.01  Aligned_cols=69  Identities=20%  Similarity=0.229  Sum_probs=41.3

Q ss_pred             ceeEEEEeCCCchh------hHHHHHHHHHhcCEEEEEEeCCCCC------ChhHH--HHHHHHHHcCCCcEEEEECCcc
Q psy2609          40 EYLINLIDSPGHVD------FSSEVSTAVRLCDGTIIVVDCVEGI------CAQTQ--VALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~------~~~~~~~~l~~~d~~ilVvd~~~~~------~~~~~--~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      ...+.++|+|||-+      -...+...++.-+.-++++...+..      .....  ..+.-+.....|.|=|+.|+|+
T Consensus        96 ~~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tMl~melphVNvlSK~Dl  175 (290)
T KOG1533|consen   96 TDHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFISSLLVSLATMLHMELPHVNVLSKADL  175 (290)
T ss_pred             cCcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHHHHHHHHHHHHhhcccchhhhhHhHH
Confidence            45789999999754      3445666666667555544433221      11111  1122233457899999999999


Q ss_pred             hhh
Q psy2609         106 LIL  108 (161)
Q Consensus       106 ~~~  108 (161)
                      .+.
T Consensus       176 ~~~  178 (290)
T KOG1533|consen  176 LKK  178 (290)
T ss_pred             HHh
Confidence            754

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=82.82  E-value=8.7  Score=30.62  Aligned_cols=93  Identities=16%  Similarity=0.196  Sum_probs=45.3

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC-------------C----CCChhHHHHHHHHHH----cCCCc--
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV-------------E----GICAQTQVALKQAWL----EKIQP--   96 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~-------------~----~~~~~~~~~~~~~~~----~~~p~--   96 (161)
                      ..-+.+|||||-....  +..+...||.++--+.-+             .    +++...+.+|+.-+.    .+.|+  
T Consensus        98 ~~DfLVID~PGtd~~l--sr~Ahs~ADtLiTPlNdSfvDfDllg~vD~~~~~v~~ps~Yse~vw~~r~~ra~~~~~~idW  175 (261)
T PF09140_consen   98 DLDFLVIDTPGTDDRL--SRVAHSMADTLITPLNDSFVDFDLLGQVDPETFKVIGPSVYSEMVWEARKLRAQADGKPIDW  175 (261)
T ss_dssp             H-SEEEEEE-SSS-HH--HHHHHHT-SEEEEEEESSHHHHCCCEEE-TTTS-EEEE-HHHHHHHHHHHCCCCTSSS--EE
T ss_pred             CCCEEEEeCCCCCcHH--HHHHHHhCCEEEccCchhHHhHHHHhccCcccceecCccHHHHHHHHHHHHHHHcCCCCccE
Confidence            4579999999976543  456777888777544322             1    234555666654332    23444  


Q ss_pred             EEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhch
Q psy2609          97 ILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFA  137 (161)
Q Consensus        97 ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  137 (161)
                      |++-|..-.....   +....-..+..+.+.+......+|+
T Consensus       176 vv~rnRl~~~~a~---Nk~~~~~~l~~ls~rigfr~~~G~~  213 (261)
T PF09140_consen  176 VVLRNRLSHLDAR---NKRRVEEALEELSKRIGFRVAPGFS  213 (261)
T ss_dssp             EEEEESBTT--HH---HHHHHHHHHHHHHHHHT-EEEE--B
T ss_pred             EEEecCccHHHhH---HHHHHHHHHHHHHHhhCceeCCCcc
Confidence            7889987654332   1122222344455555555555555

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=82.72  E-value=4.7  Score=33.86  Aligned_cols=34  Identities=21%  Similarity=0.214  Sum_probs=28.1

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|||||+.-  ...+..++..||.+|+.+.+.
T Consensus       234 ~YD~IiIDtpP~l--~~~t~nal~AaD~viiP~~~~  267 (388)
T PRK13705        234 DYDVIVIDSAPNL--GIGTINVVCAADVLIVPTPAE  267 (388)
T ss_pred             cCCEEEEECCCch--hHHHHHHHHHcCEEEEecCCc
Confidence            5789999999963  456788899999999988764

>KOG3022|consensus

Probab=82.62  E-value=1.6  Score=35.28  Aligned_cols=63  Identities=22%  Similarity=0.182  Sum_probs=39.0

Q ss_pred             ceeEEEEeCCCc-hhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEEC
Q psy2609          40 EYLINLIDSPGH-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNK  102 (161)
Q Consensus        40 ~~~i~iiDTpG~-~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK  102 (161)
                      +.-+.++|||-- -+-.-.+..+++.++++|+|-=..+-.-....+-..++++.++|++ +|-|-
T Consensus       156 ~lDyLviDtPPGtsDehls~~~~~~~~~gAviVTTPQ~vAl~Dv~K~i~fc~K~~I~ilGvVENM  220 (300)
T KOG3022|consen  156 ELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIVTTPQEVALQDVRKEIDFCRKAGIPILGVVENM  220 (300)
T ss_pred             CcCEEEEeCCCCCChhhhheeecccccCceEEEeCchhhhhHHHHhhhhhhhhcCCceEEEEecc
Confidence            567899999864 2222234455566689888874332212333455677888999998 45554

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=82.31  E-value=0.27  Score=39.76  Aligned_cols=51  Identities=12%  Similarity=0.005  Sum_probs=25.6

Q ss_pred             CCCcEEEEECCcchhhh-h-cCChHHHHHhHHHHHHHHHhhhhhhchhhhhhh
Q psy2609          93 KIQPILVLNKIDRLILE-M-KLSPLDIYVHLSQLLEQVNAVMGELFASQVMDE  143 (161)
Q Consensus        93 ~~p~ilv~NK~Dl~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  143 (161)
                      ..+-++++||+|+.... . .....+.+.++....+.++++.....+.+.+.+
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~  282 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLN  282 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHH
Confidence            45669999999997421 1 001122222222334445555555555555543

>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=82.13  E-value=0.17  Score=37.39  Aligned_cols=14  Identities=36%  Similarity=0.541  Sum_probs=9.8

Q ss_pred             eEEEEeCCCchhhH
Q psy2609          42 LINLIDSPGHVDFS   55 (161)
Q Consensus        42 ~i~iiDTpG~~~~~   55 (161)
                      ...+|||||+..|.
T Consensus        88 g~~iIDTPGf~~~~  101 (161)
T PF03193_consen   88 GGYIIDTPGFRSFG  101 (161)
T ss_dssp             SEEEECSHHHHT--
T ss_pred             CcEEEECCCCCccc
Confidence            45799999987653

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=82.04  E-value=7.7  Score=33.02  Aligned_cols=64  Identities=16%  Similarity=0.207  Sum_probs=36.9

Q ss_pred             ceeEEEEeCCCchhh----HHHHHHHHHh---cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDF----SSEVSTAVRL---CDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~~~l~~---~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+.++||||||....    .......+..   -.-+.+|++++.+. .....++....  .+++ =++++|+|-.
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~-~~l~~~~~~f~--~~~~~~vI~TKlDet  370 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKY-EDLKDIYKHFS--RLPLDGLIFTKLDET  370 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCH-HHHHHHHHHhC--CCCCCEEEEeccccc
Confidence            468999999997432    2233334442   23668889887432 12223333322  3343 5889999974

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=80.86  E-value=2.2  Score=33.25  Aligned_cols=36  Identities=14%  Similarity=0.037  Sum_probs=24.1

Q ss_pred             ceeEEEEeCCCchhhHHH-HHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSE-VSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~-~~~~l~~~d~~ilVvd~~   75 (161)
                      .+.++|+||||....... ...++..+|.+++++.++
T Consensus       116 ~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p~  152 (270)
T cd02040         116 DLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSGE  152 (270)
T ss_pred             CCCEEEEecccCcccCCcccccccccccEEEEEecCc
Confidence            578999999986422111 122233699999999876

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=80.52  E-value=5.4  Score=33.27  Aligned_cols=34  Identities=24%  Similarity=0.345  Sum_probs=28.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|+|||+..  ...+..++..||.+|+++.+.
T Consensus       234 ~yD~IiiD~pp~~--~~~~~~al~aad~viipv~p~  267 (387)
T TIGR03453       234 DYDVVVIDCPPQL--GFLTLSALCAATGVLITVHPQ  267 (387)
T ss_pred             cCCEEEEeCCccH--hHHHHHHHHHcCeeEEcCCCc
Confidence            5789999999974  446788999999999998764

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=80.36  E-value=8  Score=32.02  Aligned_cols=64  Identities=23%  Similarity=0.320  Sum_probs=34.5

Q ss_pred             CceeEEEEeCCCchh----hHHH---HHHHHHhcCE-----EEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcc
Q psy2609          39 EEYLINLIDSPGHVD----FSSE---VSTAVRLCDG-----TIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR  105 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~----~~~~---~~~~l~~~d~-----~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  105 (161)
                      .++-+.|+||+|--.    .+.+   ....+...+.     +++|+|++.|-..  ....+.. ..-+++ =++++|+|-
T Consensus       220 r~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqna--l~QAk~F-~eav~l~GiIlTKlDg  296 (340)
T COG0552         220 RGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNA--LSQAKIF-NEAVGLDGIILTKLDG  296 (340)
T ss_pred             cCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhH--HHHHHHH-HHhcCCceEEEEeccc
Confidence            457899999999421    2222   2222222233     7788899854321  1112211 223454 378999994

>PRK12289 GTPase RsgA; Reviewed

Probab=80.32  E-value=0.6  Score=38.77  Aligned_cols=14  Identities=14%  Similarity=-0.069  Sum_probs=11.0

Q ss_pred             ccccccccCCchhH
Q psy2609           2 LCMVSSYMDSRKDE   15 (161)
Q Consensus         2 ~~g~~~~~D~~~~E   15 (161)
                      ++||+++++.+..+
T Consensus       182 gVGKSSLIN~L~~~  195 (352)
T PRK12289        182 GVGKSSLINRLIPD  195 (352)
T ss_pred             CCCHHHHHHHHcCc
Confidence            68999999887543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	161
1u2r_A	842	Crystal Structure Of Adp-Ribosylated Ribosomal Tran		1e-35
1n0v_C	842	Crystal Structure Of Elongation Factor 2 Length = 8		1e-35
3deg_C	545	Complex Of Elongating Escherichia Coli 70s Ribosome		6e-17
3cb4_D	599	The Crystal Structure Of Lepa Length = 599		7e-17
4fn5_A	709	Elongation Factor G 1 (Pseudomonas Aeruginosa) In C		4e-16
3j0e_H	702	Models For The T. Thermophilus Ribosome Recycling F		8e-16
2rdo_7	704	50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length =		9e-16
1efg_A	691	The Crystal Structure Of Elongation Factor G Comple		4e-15
1ktv_A	691	Crystal Structure Of Elongation Factor G Dimer With		5e-15
1fnm_A	691	Structure Of Thermus Thermophilus Ef-G H573a Length		5e-15
2j7k_A	691	Crystal Structure Of The T84a Mutant Ef-G:gdpcp Com		5e-15
3izp_E	688	Conformation Of Ef-G During Translocation Length =		5e-15
2bm0_A	691	Ribosomal Elongation Factor G (Ef-G) Fusidic Acid R		5e-15
2bv3_A	691	Crystal Structure Of A Mutant Elongation Factor G T		5e-15
2bm1_A	691	Ribosomal Elongation Factor G (Ef-G) Fusidic Acid R		5e-15
2ywe_A	600	Crystal Structure Of Lepa From Aquifex Aeolicus Len		7e-15
2ywg_A	600	Crystal Structure Of Gtp-Bound Lepa From Aquifex Ae		9e-15
2xex_A	693	Crystal Structure Of Staphylococcus Aureus Elongati		2e-12
3zz0_A	693	Crystal Structure Of Ribosomal Elongation Factor (E		2e-12
3zzt_A	693	Crystal Structure Of Staphylococcus Aureus Elongati		1e-11
3zzu_A	693	Crystal Structure Of Staphylococcus Aureus Elongati		1e-11
3vqt_A	548	Crystal Structure Analysis Of The Translation Facto		2e-11
3j25_A	638	Structural Basis For Tetm-Mediated Tetracycline Res		7e-11
1zn0_B	655	Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map		1e-10
3tr5_A	528	Structure Of A Peptide Chain Release Factor 3 (Prfc		1e-08
3uoq_W	534	Crystal Structure Of Release Factor Rf3 Trapped In		1e-07
2h5e_A	529	Crystal Structure Of E.Coli Polypeptide Release Fac		1e-07
3u6b_A	394	Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028		5e-06
1ob2_A	393	E. Coli Elongation Factor Ef-Tu Complexed With The		5e-06
1dg1_G	394	Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Len		5e-06
1efc_A	393	Intact Elongation Factor From E.Coli Length = 393		5e-06
1d8t_A	393	Crystal Structure Of Elongation Factor, Tu (Ef-Tu-M		5e-06
1efu_A	385	Elongation Factor Complex Ef-TuEF-Ts From Escherich		5e-06
4ac9_A	482	Crystal Structure Of Translation Elongation Factor		2e-05
3agp_A	1289	Structure Of Viral Polymerase Form I Length = 1289		2e-05
3agj_A	437	Crystal Structure Of Archaeal Pelota And Gtp-bound		2e-05
3vmf_A	440	Archaeal Protein Length = 440		2e-05
1jny_A	435	Crystal Structure Of Sulfolobus Solfataricus Elonga		3e-05
3mmp_A	678	Structure Of The Qb Replicase, An Rna-Dependent Rna		3e-05
2lkc_A	178	Free B.St If2-G2 Length = 178		6e-05
1zun_B	434	Crystal Structure Of A Gtp-Regulated Atp Sulfurylas		1e-04
1efm_A	379	Structure Of The Gdp Domain Of Ef-Tu And Location O		2e-04
2wrn_Z	406	The Crystal Structure Of The 70s Ribosome Bound To		2e-04
1aip_A	405	Ef-Tu Ef-Ts Complex From Thermus Thermophilus Lengt		2e-04
2y0y_Z	405	The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bo		3e-04
2c78_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		3e-04
1exm_A	405	Crystal Structure Of Thermus Thermophilus Elongatio		3e-04
2y0u_Z	405	The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bou		3e-04
2c77_A	405	Ef-Tu Complexed With A Gtp Analog And The Antibioti		3e-04
4abr_Z	405	Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kir		3e-04
1ttt_A	405	Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Com		3e-04
1eft_A	405	The Crystal Structure Of Elongation Factor Ef-Tu Fr		3e-04
1g7s_A	594	X-Ray Structure Of Translation Initiation Factor If		4e-04
2hcj_B	335	"trypsin-Modified Elongation Factor Tu In Complex W		6e-04
1mj1_A	405	Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIB		7e-04
1g7r_A	594	X-Ray Structure Of Translation Initiation Factor If		7e-04
3izy_P	537	Mammalian Mitochondrial Translation Initiation Fact		7e-04

>pdb|1U2R|A Chain A, Crystal Structure Of Adp-Ribosylated Ribosomal Translocase From Saccharomyces Cerevisiae Length = 842

Iteration: 1
 Score =  145 bits (365), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 70/150 (46%), Positives = 109/150 (72%), Gaps = 10/150 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYK-DNKDTPE--------EYLINLIDSPGHVDFSS 56
           + + D+RKDEQERGIT+KS++ISLY +  ++D  E         +LINLIDSPGHVDFSS
Sbjct: 54  ARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSS 113
Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVD +EG+C QT+  L+QA  E+I+P++V+NK+DR +LE+++S  D
Sbjct: 114 EVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKED 173
Query: 117 IYVHLSQLLEQVNAVMGELFASQVMDETAV 146
           +Y   ++ +E VN ++   +A +V+ +  V
Sbjct: 174 LYQTFARTVESVNVIV-STYADEVLGDVQV 202

>pdb|1N0V|C Chain C, Crystal Structure Of Elongation Factor 2 Length = 842

Iteration: 1
 Score =  145 bits (365), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 70/150 (46%), Positives = 109/150 (72%), Gaps = 10/150 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYK-DNKDTPE--------EYLINLIDSPGHVDFSS 56
           + + D+RKDEQERGIT+KS++ISLY +  ++D  E         +LINLIDSPGHVDFSS
Sbjct: 54  ARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSS 113
Query: 57  EVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
           EV+ A+R+ DG ++VVD +EG+C QT+  L+QA  E+I+P++V+NK+DR +LE+++S  D
Sbjct: 114 EVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKED 173
Query: 117 IYVHLSQLLEQVNAVMGELFASQVMDETAV 146
           +Y   ++ +E VN ++   +A +V+ +  V
Sbjct: 174 LYQTFARTVESVNVIV-STYADEVLGDVQV 202

>pdb|3DEG|C Chain C, Complex Of Elongating Escherichia Coli 70s Ribosome And Ef4(Lepa)- Gmppnp Length = 545

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 45/101 (44%), Positives = 65/101 (64%), Gaps = 2/101 (1%)
Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M +  +DS   E+ERGIT+K+ S++L YK +    E Y +N ID+PGHVDFS EVS ++ 
Sbjct: 36  MEAQVLDSMDLERERGITIKAQSVTLDYKASDG--ETYQLNFIDTPGHVDFSYEVSRSLA 93
Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            C+G ++VVD  +G+ AQT      A    ++ + VLNKID
Sbjct: 94  ACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKID 134

>pdb|3CB4|D Chain D, The Crystal Structure Of Lepa Length = 599

Iteration: 1
 Score = 82.8 bits (203), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 45/101 (44%), Positives = 65/101 (64%), Gaps = 2/101 (1%)
Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M +  +DS   E+ERGIT+K+ S++L YK +    E Y +N ID+PGHVDFS EVS ++ 
Sbjct: 36  MEAQVLDSMDLERERGITIKAQSVTLDYKASDG--ETYQLNFIDTPGHVDFSYEVSRSLA 93
Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            C+G ++VVD  +G+ AQT      A    ++ + VLNKID
Sbjct: 94  ACEGALLVVDAGQGVEAQTLANCYTAMEMDLEVVPVLNKID 134

>pdb|4FN5|A Chain A, Elongation Factor G 1 (Pseudomonas Aeruginosa) In Complex With Argyrin B Length = 709

Iteration: 1
 Score = 80.5 bits (197), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 61/91 (67%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           EQERGIT+ S++++ ++K ++   + Y +N+ID+PGHVDF+ EV  ++R+ DG ++V   
Sbjct: 59  EQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCG 118
Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
             G+  Q++   +QA    +  I+ +NK+DR
Sbjct: 119 TSGVEPQSETVWRQANKYGVPRIVYVNKMDR 149

>pdb|3J0E|H Chain H, Models For The T. Thermophilus Ribosome Recycling Factor And The E. Coli Elongation Factor G Bound To The E. Coli Post-Termination Complex Length = 702

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 38/101 (37%), Positives = 64/101 (63%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + EQERGIT+ S++ + ++       E + IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 46  AATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVL 105
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           DG ++V   V G+  Q++   +QA   K+  I  +NK+DR+
Sbjct: 106 DGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRM 146

>pdb|2RDO|7 Chain 7, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound Length = 704

Iteration: 1
 Score = 79.3 bits (194), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 38/101 (37%), Positives = 64/101 (63%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + EQERGIT+ S++ + ++       E + IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 47  AATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVL 106
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           DG ++V   V G+  Q++   +QA   K+  I  +NK+DR+
Sbjct: 107 DGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRM 147

>pdb|1EFG|A Chain A, The Crystal Structure Of Elongation Factor G Complexed With Gdp, At 2.7 Angstroms Resolution Length = 691

Iteration: 1
 Score = 77.0 bits (188), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|1KTV|A Chain A, Crystal Structure Of Elongation Factor G Dimer Without Nucleotide Length = 691

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a Length = 691

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex Length = 691

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDAPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation Length = 688

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid Resistant Mutant T84a Length = 691

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDAPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped With A Gtp Analogue Length = 691

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDAPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid Resistant Mutant G16v Length = 691

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 37/100 (37%), Positives = 64/100 (64%), Gaps = 7/100 (7%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           ++ MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ 
Sbjct: 49  AATMDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVL 101
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 102 DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 141

>pdb|2YWE|A Chain A, Crystal Structure Of Lepa From Aquifex Aeolicus Length = 600

Iteration: 1
 Score = 76.3 bits (186), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 42/96 (43%), Positives = 64/96 (66%), Gaps = 2/96 (2%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+   E+ERGIT+K  ++ ++YK  KD    Y ++LID+PGHVDFS EVS A+  C+G 
Sbjct: 43  LDTLDVERERGITVKMQAVRMFYK-AKDG-NTYKLHLIDTPGHVDFSYEVSRALAACEGA 100
Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
           ++++D  +GI AQT     +A  + +  I V+NKID
Sbjct: 101 LLLIDASQGIEAQTVANFWKAVEQDLVIIPVINKID 136

>pdb|2YWG|A Chain A, Crystal Structure Of Gtp-Bound Lepa From Aquifex Aeolicus Length = 600

Iteration: 1
 Score = 75.9 bits (185), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 42/96 (43%), Positives = 63/96 (65%), Gaps = 2/96 (2%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+   E+ERGIT+K  ++  +YK  KD    Y ++LID+PGHVDFS EVS A+  C+G 
Sbjct: 43  LDTLDVERERGITVKXQAVRXFYK-AKDG-NTYKLHLIDTPGHVDFSYEVSRALAACEGA 100
Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
           ++++D  +GI AQT     +A  + +  I V+NKID
Sbjct: 101 LLLIDASQGIEAQTVANFWKAVEQDLVIIPVINKID 136

>pdb|2XEX|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation Factor G Length = 693

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 65/108 (60%), Gaps = 7/108 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +S MD  + EQ+RGIT+ S++ +  +       E + +N+ID+PGHVDF+ EV  ++R+ 
Sbjct: 47  ASQMDWMEQEQDRGITITSAATTAAW-------EGHRVNIIDTPGHVDFTVEVERSLRVL 99
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLS 113
           DG + V+D   G+  QT+   +QA    +  I+ +NK+D+L    + S
Sbjct: 100 DGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYS 147

>pdb|3ZZ0|A Chain A, Crystal Structure Of Ribosomal Elongation Factor (Ef)-G From Staphylococcus Aureus With A Fusidic Acid Hyper-Sensitivity Mutation M16i Length = 693

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 65/108 (60%), Gaps = 7/108 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +S MD  + EQ+RGIT+ S++ +  +       E + +N+ID+PGHVDF+ EV  ++R+ 
Sbjct: 47  ASQMDWMEQEQDRGITITSAATTAAW-------EGHRVNIIDTPGHVDFTVEVERSLRVL 99
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLS 113
           DG + V+D   G+  QT+   +QA    +  I+ +NK+D+L    + S
Sbjct: 100 DGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYS 147

>pdb|3ZZT|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation Factor G With A Fusidic-Acid-Resistant Mutation F88l Length = 693

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 64/108 (59%), Gaps = 7/108 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +S MD  + EQ+RGIT+ S++ +  +       E + +N+ID+PGHVD + EV  ++R+ 
Sbjct: 47  ASQMDWMEQEQDRGITITSAATTAAW-------EGHRVNIIDTPGHVDLTVEVERSLRVL 99
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLS 113
           DG + V+D   G+  QT+   +QA    +  I+ +NK+D+L    + S
Sbjct: 100 DGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYS 147

>pdb|3ZZU|A Chain A, Crystal Structure Of Staphylococcus Aureus Elongation Factor G With Mutations M16i And F88l Length = 693

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 64/108 (59%), Gaps = 7/108 (6%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +S MD  + EQ+RGIT+ S++ +  +       E + +N+ID+PGHVD + EV  ++R+ 
Sbjct: 47  ASQMDWMEQEQDRGITITSAATTAAW-------EGHRVNIIDTPGHVDLTVEVERSLRVL 99
Query: 66  DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLS 113
           DG + V+D   G+  QT+   +QA    +  I+ +NK+D+L    + S
Sbjct: 100 DGAVTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKLGANFEYS 147

>pdb|3VQT|A Chain A, Crystal Structure Analysis Of The Translation Factor Rf3 Length = 548

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 34/112 (30%), Positives = 60/112 (53%), Gaps = 11/112 (9%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E+ERGI++ +S +   Y+D        ++NL+D+PGH DFS +    +   D  ++V+D 
Sbjct: 81  ERERGISVTTSVMQFPYRDR-------VVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDA 133
Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLE 126
            +G+ AQT+  +    +     +  +NK+DR      L PLD+   + Q L+
Sbjct: 134 AKGVEAQTRKLMDVCRMRATPVMTFVNKMDR----EALHPLDVMADIEQHLQ 181

>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance Length = 638

Iteration: 1
 Score = 62.8 bits (151), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/91 (32%), Positives = 55/91 (60%), Gaps = 7/91 (7%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E++RGIT+++   S  +++ K       +N+ID+PGH+DF +EV  ++ + DG I+++  
Sbjct: 48  ERQRGITIQTGITSFQWENTK-------VNIIDTPGHMDFLAEVYRSLSVLDGAILLISA 100
Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
            +G+ AQT++         I  I  +NKID+
Sbjct: 101 KDGVQAQTRILFHALRKMGIPTIFFINKIDQ 131

>pdb|1ZN0|B Chain B, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The 50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf Length = 655

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 33/104 (31%), Positives = 61/104 (58%), Gaps = 10/104 (9%)
Query: 5   VSSYMDSRKDEQERGITMKSSSISL---YYKDNKDTPEEYLINLIDSPGHVDFSSEVSTA 61
           +++++D+ K      I   +  I++   ++KD++       IN+ID+PGHVDF+ EV  +
Sbjct: 12  IAAHIDAGKTTTTERILYYTGRIAVTTCFWKDHR-------INIIDTPGHVDFTIEVERS 64
Query: 62  VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           +R+ DG I+V D  +G+  Q++   +QA   K+  I   NK+D+
Sbjct: 65  MRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDK 108

>pdb|3TR5|A Chain A, Structure Of A Peptide Chain Release Factor 3 (Prfc) From Coxiella Burnetii Length = 528

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/92 (33%), Positives = 50/92 (54%), Gaps = 9/92 (9%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E++RGI++ +S     YKD       YLINL+D+PGH DF+ +    +   D  + V+D 
Sbjct: 63  EKQRGISVTTSVXQFPYKD-------YLINLLDTPGHADFTEDTYRTLTAVDSALXVIDA 115
Query: 75  VEGICAQTQVALKQAWLEKIQPILV-LNKIDR 105
            +G+  +T + L +    +  PI   +NK DR
Sbjct: 116 AKGVEPRT-IKLXEVCRLRHTPIXTFINKXDR 146

>pdb|3UOQ|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp State On A Rotated Conformation Of The Ribosome (Without Viomycin) Length = 534

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 51/93 (54%), Gaps = 7/93 (7%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E++RGI++ +S +   Y D        L+NL+D+PGH DFS +    +   D  ++V+D 
Sbjct: 63  EKQRGISITTSVMQFPYHD-------CLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDA 115
Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDRLI 107
            +G+  +T+  ++   L     +  +NK+DR I
Sbjct: 116 AKGVEDRTRKLMEVTRLRDTPILTFMNKLDRDI 148

>pdb|2H5E|A Chain A, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3 Length = 529

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 51/93 (54%), Gaps = 7/93 (7%)
Query: 15  EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC 74
           E++RGI++ +S +   Y D        L+NL+D+PGH DFS +    +   D  ++V+D 
Sbjct: 63  EKQRGISITTSVMQFPYHD-------CLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDA 115
Query: 75  VEGICAQTQVALKQAWLEKIQPILVLNKIDRLI 107
            +G+  +T+  ++   L     +  +NK+DR I
Sbjct: 116 AKGVEDRTRKLMEVTRLRDTPILTFMNKLDRDI 148

>pdb|3U6B|A Chain A, Ef-Tu (Escherichia Coli) In Complex With Nvp-Ldi028 Length = 394

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 50  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 103 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 139

>pdb|1OB2|A Chain A, E. Coli Elongation Factor Ef-Tu Complexed With The Antibiotic Kirromycin, A Gtp Analog, And Phe-Trna Length = 393

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 49  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 101
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 102 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 138

>pdb|1DG1|G Chain G, Whole, Unmodified, Ef-Tu(Elongation Factor Tu). Length = 394

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 50  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 103 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 139

>pdb|1EFC|A Chain A, Intact Elongation Factor From E.Coli Length = 393

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 49  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 101
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 102 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 138

>pdb|1D8T|A Chain A, Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp) Complexed With Ge2270a, A Thiazolyl Peptide Antibiotic Length = 393

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 49  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 101
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 102 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 138

>pdb|1EFU|A Chain A, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli Length = 385

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 41  IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 93
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 94  ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 130

>pdb|4AC9|A Chain A, Crystal Structure Of Translation Elongation Factor Selb From Methanococcus Maripaludis In Complex With Gdp Length = 482

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 7/77 (9%)
Query: 6   SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLC 65
           +S  D   + Q+RGIT+     S +  +N      Y I L+D+PGH D    V +A  + 
Sbjct: 45  TSAHDKLPESQKRGITI-DIGFSAFKLEN------YRITLVDAPGHADLIRAVVSAADII 97
Query: 66  DGTIIVVDCVEGICAQT 82
           D  +IVVD  EG   QT
Sbjct: 98  DLALIVVDAKEGPKTQT 114

>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I Length = 1289

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 334 IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 386
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 387 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 423

>pdb|3AGJ|A Chain A, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1 Alpha Complex Length = 437

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  K+E+ERGIT+  + +    K       +Y+  +ID+PGH DF   + T     D  
Sbjct: 59  LDKMKEERERGITIDLTFMKFETK-------KYVFTIIDAPGHRDFVKNMITGASQADAA 111
Query: 69  IIVVDCVEG 77
           I+VV   +G
Sbjct: 112 ILVVSARKG 120

>pdb|3VMF|A Chain A, Archaeal Protein Length = 440

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  K+E+ERGIT+  + +    K       +Y+  +ID+PGH DF   + T     D  
Sbjct: 62  LDKMKEERERGITIDLTFMKFETK-------KYVFTIIDAPGHRDFVKNMITGASQADAA 114
Query: 69  IIVVDCVEG 77
           I+VV   +G
Sbjct: 115 ILVVSARKG 123

>pdb|1JNY|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Elongation Factor 1 Alpha In Complex With Gdp Length = 435

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 50/106 (47%), Gaps = 19/106 (17%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  K+E+ERG+T+  + +    K       +Y   +ID+PGH DF   + T     D  
Sbjct: 59  LDRLKEERERGVTINLTFMRFETK-------KYFFTIIDAPGHRDFVKNMITGASQADAA 111
Query: 69  IIVVDC----------VEGICAQTQVALKQAWLEKIQPILVLNKID 104
           I+VV            VEG   +  +  K   L+++  I+ +NK+D
Sbjct: 112 ILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQL--IVAVNKMD 155

>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna Polymerase Consisting Of Viral And Host Proteins Length = 678

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D+  +E+ RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG 
Sbjct: 334 IDNAPEEKARGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGA 386
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  I+ LNK D
Sbjct: 387 ILVVAATDGPMPQTREHILLGRQVGVPYI--IVFLNKCD 423

>pdb|2LKC|A Chain A, Free B.St If2-G2 Length = 178

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 47/96 (48%), Gaps = 8/96 (8%)
Query: 11  SRKDEQERG-ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
           S+  EQE G IT    +  +   D K       I  +D+PGH  F++  +   ++ D  I
Sbjct: 31  SKVTEQEAGGITQHIGAYQVTVNDKK-------ITFLDTPGHEAFTTMRARGAQVTDIVI 83
Query: 70  IVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           +VV   +G+  QT  A+  A    +  I+ +NK+D+
Sbjct: 84  LVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDK 119

>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase Heterodimer From Pseudomonas Syringae Length = 434

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 51/107 (47%), Gaps = 13/107 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  + E+E+GIT     I + Y+       +++I   D+PGH  ++   +T    CD  
Sbjct: 79  VDGLQAEREQGIT-----IDVAYRYFSTAKRKFII--ADTPGHEQYTRNXATGASTCDLA 131
Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILV------LNKIDRLILE 109
           II+VD   G+  QT+     A L  I+ I+V      LN  D  + E
Sbjct: 132 IILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKXDLNGFDERVFE 178

>pdb|1EFM|A Chain A, Structure Of The Gdp Domain Of Ef-Tu And Location Of The Amino Acids Homologous To Ras Oncogene Proteins Length = 379

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 12/90 (13%)
Query: 18  RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG 77
           RGIT+ +S +        DTP  +  + +D PGH D+   + T     DG I+VV   +G
Sbjct: 44  RGITINTSHVEY------DTPTRHYAH-VDCPGHADYVKNMITGAAQMDGAILVVAATDG 96
Query: 78  ICAQTQVAL---KQAWLEKIQPILVLNKID 104
              QT+  +   +Q  +  I  I+ LNK D
Sbjct: 97  PMPQTREHILLGRQVGVPYI--IVFLNKCD 124

>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu And Trna (Part 1 Of 4). Length = 406

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 51  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 103
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 104 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 140

>pdb|1AIP|A Chain A, Ef-Tu Ef-Ts Complex From Thermus Thermophilus Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Pulvomycin Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation Factor Tu (Ef-Tu) In Complex With The Gtp Analogue Gppnhp. Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A Near-Cognate Codon On The 70s Ribosome Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|2C77|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic Ge2270 A Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin With The 70s Ribosome Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From Thermus Aquaticus In The Gtp Conformation Length = 405

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 12/99 (12%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D   +E+ RGIT+ ++ +   Y+  K     Y  + +D PGH D+   + T     DG 
Sbjct: 50  IDKAPEERARGITINTAHVE--YETAK---RHY--SHVDCPGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVAL---KQAWLEKIQPILVLNKID 104
           I+VV   +G   QT+  +   +Q  +  I  ++ +NK+D
Sbjct: 103 ILVVSAADGPMPQTREHILLARQVGVPYI--VVFMNKVD 139

>pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Complexed With Gdp Length = 594

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 23/62 (37%), Positives = 33/62 (53%)
Query: 45  LIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            ID+PGH  F++       L D  I++VD  EG   QTQ AL    + +   ++  NKID
Sbjct: 74  FIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKID 133
Query: 105 RL 106
           R+
Sbjct: 134 RI 135

>pdb|2HCJ|B Chain B, "trypsin-Modified Elongation Factor Tu In Complex With Tetracycline" Length = 335

Iteration: 1
 Score = 40.0 bits (92), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 12/89 (13%)
Query: 19  GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI 78
           GIT+ +S +        DTP  +  + +D PGH D+   + T     DG I+VV   +G 
Sbjct: 1   GITINTSHVEY------DTPTRHYAH-VDXPGHADYVKNMITGAAQMDGAILVVAATDGP 53
Query: 79  CAQTQVAL---KQAWLEKIQPILVLNKID 104
             QT+  +   +Q  +  I  I+ LNK D
Sbjct: 54  MPQTREHILLGRQVGVPYI--IVFLNKCD 80

>pdb|1MJ1|A Chain A, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s Ribosome Length = 405

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/97 (26%), Positives = 50/97 (51%), Gaps = 8/97 (8%)
Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  ++E+ RGIT+ ++ +        +T + +  + +D  GH D+   + T     DG 
Sbjct: 50  IDKAREERARGITINTAHVEY------ETAKRHYSH-VDCRGHADYIKNMITGAAQMDGA 102
Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILV-LNKID 104
           I+VV   +G   QT+  +  A    ++ I+V +NK+D
Sbjct: 103 ILVVSAADGRMRQTREHILLARQVGVRYIVVFMNKVD 139

>pdb|1G7R|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B Length = 594

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 23/62 (37%), Positives = 32/62 (51%)
Query: 45  LIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
            ID+PGH  F++       L D  I++VD  EG   QTQ AL      +   ++  NKID
Sbjct: 74  FIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRXYRTPFVVAANKID 133
Query: 105 RL 106
           R+
Sbjct: 134 RI 135

>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2 Length = 537

Iteration: 1
 Score = 39.7 bits (91), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 36/68 (52%)
Query: 38  PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI 97
           P    I  +D+PGH  FS+  +   ++ D  I+VV   +G+  QT  +++ A    +  +
Sbjct: 49  PSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVPIV 108
Query: 98  LVLNKIDR 105
           L +NK D+
Sbjct: 109 LAINKCDK 116

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	161
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	2e-59
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	1e-25
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	1e-25
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	5e-21
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	8e-18
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	4e-16
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	5e-16
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	6e-15
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	1e-14
1wb1_A	482	Translation elongation factor SELB; selenocysteine	7e-10
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	2e-08
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	2e-07
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	6e-07
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	1e-06
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	1e-06
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	9e-06
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	3e-05
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	4e-05
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	4e-05
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	9e-05
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	2e-04
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	9e-04

>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* Length = 842

 Score =  196 bits (499), Expect = 2e-59
 Identities = 65/135 (48%), Positives = 100/135 (74%), Gaps = 9/135 (6%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPE---------EYLINLIDSPGHVDFSSEV 58
           + D+RKDEQERGIT+KS++ISLY + + +  +          +LINLIDSPGHVDFSSEV
Sbjct: 56  FTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEV 115

Query: 59  STAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIY 118
           + A+R+ DG ++VVD +EG+C QT+  L+QA  E+I+P++V+NK+DR +LE+++S  D+Y
Sbjct: 116 TAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLY 175

Query: 119 VHLSQLLEQVNAVMG 133
              ++ +E VN ++ 
Sbjct: 176 QTFARTVESVNVIVS 190

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C* Length = 599

 Score =  100 bits (252), Expect = 1e-25
 Identities = 48/104 (46%), Positives = 67/104 (64%), Gaps = 8/104 (7%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
           M +  +DS   E+ERGIT+K+ S++L YK   D  E Y +N ID+PGHVDFS EVS ++ 
Sbjct: 36  MEAQVLDSMDLERERGITIKAQSVTLDYK-ASDG-ETYQLNFIDTPGHVDFSYEVSRSLA 93

Query: 64  LCDGTIIVVDCVEGICAQTQVALKQAWLE---KIQPILVLNKID 104
            C+G ++VVD  +G+ AQT      A +E   ++ P  VLNKID
Sbjct: 94  ACEGALLVVDAGQGVEAQTLANCYTA-MEMDLEVVP--VLNKID 134

>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* Length = 600

 Score =  100 bits (252), Expect = 1e-25
 Identities = 45/105 (42%), Positives = 66/105 (62%), Gaps = 10/105 (9%)

Query: 4   MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR 63
                +D+   E+ERGIT+K  ++ ++YK  KD    Y ++LID+PGHVDFS EVS A+ 
Sbjct: 38  KREQLLDTLDVERERGITVKMQAVRMFYK-AKDG-NTYKLHLIDTPGHVDFSYEVSRALA 95

Query: 64  LCDGTIIVVDCVEGICAQTQ----VALKQAWLEKIQPILVLNKID 104
            C+G ++++D  +GI AQT      A++Q  L  I P  V+NKID
Sbjct: 96  ACEGALLLIDASQGIEAQTVANFWKAVEQD-LV-IIP--VINKID 136

>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* Length = 665

 Score = 87.6 bits (218), Expect = 5e-21
 Identities = 20/97 (20%), Positives = 45/97 (46%), Gaps = 7/97 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
            D   + +    T+++    L ++ ++       + L+D+PG+ DF  E+  A+   D  
Sbjct: 49  TDYTPEAKLHRTTVRTGVAPLLFRGHR-------VFLLDAPGYGDFVGEIRGALEAADAA 101

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDR 105
           ++ V    G+   T+ A   A    +  ++V+ K+D+
Sbjct: 102 LVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDK 138

>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 Length = 704

 Score = 78.3 bits (194), Expect = 8e-18
 Identities = 38/98 (38%), Positives = 62/98 (63%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + EQERGIT+ S++ + ++       E + IN+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 50  MDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGA 109

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           ++V   V G+  Q++   +QA   K+  I  +NK+DR+
Sbjct: 110 VMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRM 147

>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 ... Length = 691

 Score = 73.7 bits (182), Expect = 4e-16
 Identities = 37/98 (37%), Positives = 62/98 (63%), Gaps = 7/98 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + E+ERGIT+ ++  + ++KD++       IN+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 52  MDFMEQERERGITITAAVTTCFWKDHR-------INIIDTPGHVDFTIEVERSMRVLDGA 104

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           I+V D  +G+  Q++   +QA   K+  I   NK+D+ 
Sbjct: 105 IVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKT 142

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus} Length = 693

 Score = 73.3 bits (181), Expect = 5e-16
 Identities = 35/98 (35%), Positives = 62/98 (63%), Gaps = 7/98 (7%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           MD  + EQ+RGIT+ S++ +  ++ ++       +N+ID+PGHVDF+ EV  ++R+ DG 
Sbjct: 50  MDWMEQEQDRGITITSAATTAAWEGHR-------VNIIDTPGHVDFTVEVERSLRVLDGA 102

Query: 69  IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL 106
           + V+D   G+  QT+   +QA    +  I+ +NK+D+L
Sbjct: 103 VTVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKL 140

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii} Length = 528

 Score = 70.1 bits (172), Expect = 6e-15
 Identities = 38/133 (28%), Positives = 69/133 (51%), Gaps = 29/133 (21%)

Query: 5   VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE---VSTA 61
            S +M+    E++RGI++ +S +   YKD       YLINL+D+PGH DF+ +     TA
Sbjct: 56  TSDWMEL---EKQRGISVTTSVMQFPYKD-------YLINLLDTPGHADFTEDTYRTLTA 105

Query: 62  VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILV-LNKIDRLILEMKLSPLDIYVH 120
           V   D  ++V+D  +G+  +T   ++   L    PI+  +NK+DR         ++    
Sbjct: 106 V---DSALMVIDAAKGVEPRTIKLMEVCRLRHT-PIMTFINKMDRDTRP----SIE---- 153

Query: 121 LSQLLEQVNAVMG 133
              LL+++ +++ 
Sbjct: 154 ---LLDEIESILR 163

>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* Length = 529

 Score = 69.0 bits (169), Expect = 1e-14
 Identities = 40/133 (30%), Positives = 69/133 (51%), Gaps = 29/133 (21%)

Query: 5   VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE---VSTA 61
            S +M+    E++RGI++ +S +   Y D        L+NL+D+PGH DFS +     TA
Sbjct: 56  KSDWMEM---EKQRGISITTSVMQFPYHD-------CLVNLLDTPGHEDFSEDTYRTLTA 105

Query: 62  VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILV-LNKIDRLILEMKLSPLDIYVH 120
           V   D  ++V+D  +G+  +T+  ++   L    PIL  +NK+DR I +    P++    
Sbjct: 106 V---DCCLMVIDAAKGVEDRTRKLMEVTRLRDT-PILTFMNKLDRDIRD----PME---- 153

Query: 121 LSQLLEQVNAVMG 133
              LL++V   + 
Sbjct: 154 ---LLDEVENELK 163

>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* Length = 482

 Score = 55.5 bits (134), Expect = 7e-10
 Identities = 32/105 (30%), Positives = 46/105 (43%), Gaps = 9/105 (8%)

Query: 2   LCMVSSY--MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVS 59
           L  ++S    D   + Q+RGIT+     +            Y I L+D+PGH D    V 
Sbjct: 39  LTEIASTSAHDKLPESQKRGITIDIGFSAF------KLEN-YRITLVDAPGHADLIRAVV 91

Query: 60  TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKID 104
           +A  + D  +IVVD  EG   QT   +       I  I+V+ K D
Sbjct: 92  SAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSD 136

>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 Length = 434

 Score = 51.1 bits (123), Expect = 2e-08
 Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 22/104 (21%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGT 68
           +D  + E+E+GIT+  +    Y+     T +   I + D+PGH  ++  ++T    CD  
Sbjct: 79  VDGLQAEREQGITIDVAYR--YFS----TAKRKFI-IADTPGHEQYTRNMATGASTCDLA 131

Query: 69  IIVVDCVEGICAQTQ-----VAL---KQAWLEKIQPILVLNKID 104
           II+VD   G+  QT+      +L   K         ++ +NK+D
Sbjct: 132 IILVDARYGVQTQTRRHSYIASLLGIKHI-------VVAINKMD 168

>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 Length = 458

 Score = 48.5 bits (116), Expect = 2e-07
 Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 7/70 (10%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  K E+ERGIT+    I+L+  +      +Y + +ID+PGH DF   + T     D 
Sbjct: 59  VLDKLKAERERGITI---DIALWKFET----PKYQVTVIDAPGHRDFIKNMITGTSQADC 111

Query: 68  TIIVVDCVEG 77
            I+++    G
Sbjct: 112 AILIIAGGVG 121

>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* Length = 435

 Score = 46.9 bits (112), Expect = 6e-07
 Identities = 29/106 (27%), Positives = 51/106 (48%), Gaps = 17/106 (16%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  K+E+ERG+T+   +++    +     ++Y   +ID+PGH DF   + T     D 
Sbjct: 58  LLDRLKEERERGVTI---NLTFMRFET----KKYFFTIIDAPGHRDFVKNMITGASQADA 110

Query: 68  TIIVVDCVEG-----ICAQTQVALKQAWLEKI----QPILVLNKID 104
            I+VV   +G     +  + Q   +   L K     Q I+ +NK+D
Sbjct: 111 AILVVSAKKGEYEAGMSVEGQ-TREHIILAKTMGLDQLIVAVNKMD 155

>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* Length = 594

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 32/104 (30%), Positives = 44/104 (42%), Gaps = 20/104 (19%)

Query: 46  IDSPGHVDFSSEVSTAVR-----LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILV- 99
           ID+PGH  F     T +R     L D  I++VD  EG   QTQ AL    + +  P +V 
Sbjct: 75  IDTPGHEAF-----TTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRT-PFVVA 128

Query: 100 LNKIDRLILEMKLSPLDIYVHLSQLLEQVNA--------VMGEL 135
            NKIDR+               S+   QV          ++G+L
Sbjct: 129 ANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVYELVGKL 172

>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 Length = 467

 Score = 45.8 bits (109), Expect = 1e-06
 Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 7/70 (10%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +DS  +E+E+G T+    +   Y +     E    +L+D+PGH  + + +       D 
Sbjct: 95  ALDSTSEEREKGKTV---EVGRAYFET----EHRRFSLLDAPGHKGYVTNMINGASQADI 147

Query: 68  TIIVVDCVEG 77
            ++V+    G
Sbjct: 148 GVLVISARRG 157

>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 Length = 408

 Score = 43.4 bits (103), Expect = 9e-06
 Identities = 33/148 (22%), Positives = 50/148 (33%), Gaps = 39/148 (26%)

Query: 10  DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLIN-----------------LIDSPGHV 52
           D   +E  RGI+++                 Y                     +DSPGH 
Sbjct: 34  DRHSEELRRGISIRLGYAD-CEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHE 92

Query: 53  DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNKIDRLI 107
              + + +   L DG I+V+   E  C Q Q     +AL+   ++KI  I+V NKID   
Sbjct: 93  TLMATMLSGASLMDGAILVIAANEP-CPQPQTKEHLMALEILGIDKI--IIVQNKIDL-- 147

Query: 108 LEMKLSPLDIYVHLSQLLEQVNAVMGEL 135
                      V   Q  E    +   +
Sbjct: 148 -----------VDEKQAEENYEQIKEFV 164

>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* Length = 483

 Score = 41.8 bits (99), Expect = 3e-05
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 7/46 (15%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF 54
           MD   +E+ERG+T+   SI   +     T       ++D+PGH DF
Sbjct: 86  MDQTNEERERGVTV---SICTSH---FSTH-RANFTIVDAPGHRDF 124

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe} Length = 592

 Score = 41.6 bits (98), Expect = 4e-05
 Identities = 12/46 (26%), Positives = 26/46 (56%), Gaps = 7/46 (15%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF 54
           +D+ ++E+ RG+TM    ++       ++  + +  + D+PGH DF
Sbjct: 230 LDTTEEERARGVTM---DVASTT---FESD-KKIYEIGDAPGHRDF 268

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae} Length = 611

 Score = 41.6 bits (98), Expect = 4e-05
 Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 7/46 (15%)

Query: 9   MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF 54
           MD   +E+ERG+T+   SI   +     T       ++D+PGH DF
Sbjct: 220 MDQTNEERERGVTV---SICTSH---FSTH-RANFTIVDAPGHRDF 258

>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* Length = 410

 Score = 40.3 bits (95), Expect = 9e-05
 Identities = 28/116 (24%), Positives = 44/116 (37%), Gaps = 24/116 (20%)

Query: 10  DSRKDEQERGITMKSS----------SISLYYKDNKDTPEEYLINL------IDSPGHVD 53
           D+  +E  RGIT+K            +   Y          +          ID+PGH  
Sbjct: 36  DTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEA 95

Query: 54  FSSEVSTAVRLCDGTIIVVDCVEGICAQTQ-----VALKQAWLEKIQPILVLNKID 104
             + +     L DG I+V+   E  C + Q     +AL+    + I  I+  NKI+
Sbjct: 96  LMTTMLAGASLMDGAILVIAANEP-CPRPQTREHLMALQIIGQKNI--IIAQNKIE 148

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei} Length = 370

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 14/98 (14%), Positives = 35/98 (35%), Gaps = 19/98 (19%)

Query: 13  KDEQERGITMKSSSISL---YYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI 69
            +  ++G +       +            E   +  +D+  +      + TA+ + D  +
Sbjct: 39  ANLGKKGTS-----SDITMYNND-----KEGRNMVFVDAHSYPKTLKSLITALNISDIAV 88

Query: 70  IVVDCVEGICAQTQ---VALKQAWLEKIQPILVLNKID 104
           + +   +G+ A T    +AL     +    I+ L + D
Sbjct: 89  LCIP-PQGLDAHTGECIIALDLLGFKHG--IIALTRSD 123

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A* Length = 178

 Score = 36.9 bits (86), Expect = 9e-04
 Identities = 21/64 (32%), Positives = 37/64 (57%), Gaps = 2/64 (3%)

Query: 43  INLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILV-LN 101
           I  +D+PGH  F++  +   ++ D  I+VV   +G+  QT  A+  A    + PI+V +N
Sbjct: 57  ITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANV-PIIVAIN 115

Query: 102 KIDR 105
           K+D+
Sbjct: 116 KMDK 119

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	161
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.88
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.88
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.85
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.77
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.76
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.75
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.75
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.75
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.75
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.71
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.71
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.7
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.7
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.69
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.69
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.68
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.68
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.68
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.67
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.67
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.66
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.65
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.64
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.63
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.62
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.6
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.6
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.59
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.58
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.58
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.57
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.56
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.56
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.56
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.56
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.55
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.55
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.55
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.54
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.54
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.53
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.53
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.53
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.53
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.52
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.52
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.52
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.52
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.52
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.52
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.52
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.51
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.51
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.51
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.51
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.51
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.51
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.5
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.5
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.5
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.5
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.5
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.5
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.5
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.5
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.5
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.49
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.49
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.49
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.49
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.49
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.49
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.49
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.49
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.49
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.48
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.48
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.48
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.48
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.48
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.48
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.48
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.48
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.48
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.48
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.47
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.47
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.47
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.47
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.47
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.47
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.47
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.47
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.2
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.46
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.46
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.46
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.46
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.46
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.46
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.46
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.45
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.45
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.45
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.45
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.45
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.45
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.44
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.44
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.44
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.44
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.44
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.44
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.44
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.43
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.43
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.43
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.43
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.43
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.43
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.43
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.42
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.42
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.42
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.42
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.42
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.42
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.42
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.42
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.41
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.41
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.41
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.41
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.41
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.4
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.39
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.39
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.39
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.39
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.39
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.38
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.38
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.38
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.38
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.37
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.37
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.37
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.37
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.36
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.36
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.36
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.34
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.34
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.33
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.32
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.32
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.32
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.31
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.31
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.31
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.3
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.29
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.29
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.29
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.29
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.28
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.25
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.25
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.23
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.23
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.21
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.2
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.17
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.15
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.11
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.09
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.07
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.06
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.04
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.03
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.03
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.0
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.0
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	98.97
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.95
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.95
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.93
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.89
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.88
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.87
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.86
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.84
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.6
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.58
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.38
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.33
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.32
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.27
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.27
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.17
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.15
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.07
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.02
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	97.99
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.98
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	97.89
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.74
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.68
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.63
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.61
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.57
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.56
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.52
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.5
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	97.39
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.37
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.06
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	96.86
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.82
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.81
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	96.8
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.65
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.54
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.54
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.41
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.2
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	95.95
2xxa_A	433	Signal recognition particle protein; protein trans	95.89
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.84
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	95.8
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	95.79
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	95.72
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	95.62
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.55
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	95.54
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	95.28
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	95.15
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	95.12
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	94.88
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.76
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.33
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.13
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.02
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	93.88
3end_A	307	Light-independent protochlorophyllide reductase ir	93.13
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	92.63
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	91.73
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	91.71
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	91.68
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	91.45
2hf9_A	226	Probable hydrogenase nickel incorporation protein	90.65
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	89.94
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	89.35
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	89.33
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	87.24
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	87.07
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	86.92
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	86.6
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	85.88
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	85.76
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	85.23
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	84.6
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	83.85
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	83.61

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.88  E-value=7.4e-23  Score=175.41  Aligned_cols=97  Identities=30%  Similarity=0.529  Sum_probs=78.8

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHH
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVA   85 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~   85 (161)
                      .+++|+++.|++|||||.+...++.|+       +++|+|||||||.+|...+..+++.+|+||+|+|+.+|+..|++.+
T Consensus        72 ~~~~D~~~~EreRGITI~s~~~~~~~~-------~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v  144 (548)
T 3vqt_A           72 HATSDWMAMERERGISVTTSVMQFPYR-------DRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKL  144 (548)
T ss_dssp             ----------------CTTTEEEEEET-------TEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHH
T ss_pred             ccccCChHHHHHCCCcEeeceEEEEEC-------CEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHH
Confidence            478899999999999999999999998       8999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCcEEEEECCcchhhh
Q psy2609          86 LKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        86 ~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      |+++...++|.|+++||+|+...+
T Consensus       145 ~~~a~~~~lp~i~fINK~Dr~~ad  168 (548)
T 3vqt_A          145 MDVCRMRATPVMTFVNKMDREALH  168 (548)
T ss_dssp             HHHHHHTTCCEEEEEECTTSCCCC
T ss_pred             HHHHHHhCCceEEEEecccchhcc
Confidence            999999999999999999998766

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.88  E-value=1.6e-22  Score=177.76  Aligned_cols=107  Identities=33%  Similarity=0.534  Sum_probs=80.4

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHH
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQ   83 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~   83 (161)
                      ++++++|.++.|++||||+.++..++.|.......+++.|+|||||||.+|..++..+++.+|+||+|+|+.+|+..|++
T Consensus        48 ~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~  127 (709)
T 4fn5_A           48 DGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSE  127 (709)
T ss_dssp             --------------------CCEEEEEECCTTSCSCCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHH
T ss_pred             CCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHH
Confidence            45778999999999999999999999998544445579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCcEEEEECCcchhhhh
Q psy2609          84 VALKQAWLEKIQPILVLNKIDRLILEM  110 (161)
Q Consensus        84 ~~~~~~~~~~~p~ilv~NK~Dl~~~~~  110 (161)
                      .+|+++...++|.++|+||+|+...+.
T Consensus       128 ~v~~~a~~~~lp~i~~iNKiDr~~a~~  154 (709)
T 4fn5_A          128 TVWRQANKYGVPRIVYVNKMDRQGANF  154 (709)
T ss_dssp             HHHHHHHHHTCCEEEEEECSSSTTCCH
T ss_pred             HHHHHHHHcCCCeEEEEccccccCccH
Confidence            999999999999999999999987663

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.85  E-value=1.6e-22  Score=175.96  Aligned_cols=98  Identities=31%  Similarity=0.531  Sum_probs=93.4

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +++++|+++.|++||||+.+...++.|.       +++|+|||||||.+|..++..+++.+|++|+|+|+.+|+..|++.
T Consensus        38 g~~~~D~~~~EreRGITI~s~~~~~~~~-------~~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~  110 (638)
T 3j25_A           38 GTTRTDNTLLERQRGITIQTGITSFQWE-------NTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRI  110 (638)
T ss_dssp             SCCSTTCSTTHHHHSSCSSCCCCCCBCS-------SCBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHH
T ss_pred             CCcccCCcHHHHhCCCcEEeeeEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHH
Confidence            4678999999999999999999999998       789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|+++...++|.|+++||+|+...+
T Consensus       111 v~~~a~~~~lp~i~~INKmDr~~a~  135 (638)
T 3j25_A          111 LFHALRKMGIPTIFFINKIDQNGID  135 (638)
T ss_dssp             HHHHHHHHTCSCEECCEECCSSSCC
T ss_pred             HHHHHHHcCCCeEEEEeccccccCC
Confidence            9999999999999999999997655

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.77  E-value=1.2e-18  Score=145.58  Aligned_cols=94  Identities=20%  Similarity=0.338  Sum_probs=83.3

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC-------
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC-------   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~-------   79 (161)
                      |++|.+++|+++|+|++.....+.+.       +++++|||||||++|...+..+++.+|++|+|+|++++..       
T Consensus        68 ~~~d~~~~er~~GiTid~~~~~~~~~-------~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~  140 (439)
T 3j2k_7           68 WALDTNQEERDKGKTVEVGRAYFETE-------KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKG  140 (439)
T ss_pred             hhhccchhHhhcCceEEEeEEEEecC-------CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCC
Confidence            35678889999999999887777665       7799999999999999999999999999999999998875       


Q ss_pred             hhHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          80 AQTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      .++.+++..+...++| +|+|+||+|+..
T Consensus       141 ~qt~e~l~~~~~~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7          141 GQTREHAMLAKTAGVKHLIVLINKMDDPT  169 (439)
T ss_pred             chHHHHHHHHHHcCCCeEEEEeecCCCcc
Confidence            6888888888888999 889999999964

>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=99.76  E-value=3e-18  Score=153.12  Aligned_cols=129  Identities=51%  Similarity=0.864  Sum_probs=96.8

Q ss_pred             ccccccCCchhHHHcCCccccceEEEEeecC---------CCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeC
Q psy2609           4 MVSSYMDSRKDEQERGITMKSSSISLYYKDN---------KDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         4 g~~~~~D~~~~E~~~giti~~~~~~~~~~~~---------~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      |.++++|..+.|+++|+|+.....++.|...         ..+++.+.++|||||||.+|...+..+++.+|++|+|+|+
T Consensus        52 ~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa  131 (842)
T 1n0u_A           52 GEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDT  131 (842)
T ss_dssp             ---------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEET
T ss_pred             CCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeC
Confidence            4456778888899999999998888888610         0124578999999999999999999999999999999999


Q ss_pred             CCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhh
Q psy2609          75 VEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVM  132 (161)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (161)
                      ++++..++..+|..+...++|+++|+||+|+...+......+.+..+...++++...+
T Consensus       132 ~~g~~~qt~~~~~~~~~~~~p~ilviNK~D~~~~e~~~~~~e~~~~~~~~~~~i~~~l  189 (842)
T 1n0u_A          132 IEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIV  189 (842)
T ss_dssp             TTBSCHHHHHHHHHHHHTTCEEEEEEECHHHHHHTSCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHcCCCeEEEEECCCcchhhhccCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998888889999999999999877766777887888877777665443

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.75  E-value=3.8e-18  Score=147.46  Aligned_cols=101  Identities=44%  Similarity=0.646  Sum_probs=74.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|.++.|+++|+|+......+.|...  +++.+.++|||||||++|...+..+++.+|++|+|+|+++++..++...|
T Consensus        39 ~~~D~~~~ErerGiTi~~~~~~~~~~~~--~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~  116 (599)
T 3cb4_D           39 QVLDSMDLERERGITIKAQSVTLDYKAS--DGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANC  116 (599)
T ss_dssp             ------------------CEEEEEEECT--TSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHH
T ss_pred             cccccchhhhcccceeeeeEEEEEEecC--CCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHH
Confidence            3456677889999999999999988631  15568999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+|+|+||+|+...+
T Consensus       117 ~~~~~~~ipiIvViNKiDl~~a~  139 (599)
T 3cb4_D          117 YTAMEMDLEVVPVLNKIDLPAAD  139 (599)
T ss_dssp             HHHHHTTCEEEEEEECTTSTTCC
T ss_pred             HHHHHCCCCEEEeeeccCccccc
Confidence            88888899999999999997643

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.75  E-value=2.7e-18  Score=146.61  Aligned_cols=93  Identities=31%  Similarity=0.563  Sum_probs=84.7

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQA   89 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~   89 (161)
                      |+++.|+++|+|+......+.|.       +++++|||||||++|...+..+++.+|++|+|+|++.++..++..+|..+
T Consensus        58 d~~~~e~~~GiTi~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~  130 (528)
T 3tr5_A           58 DWMELEKQRGISVTTSVMQFPYK-------DYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVC  130 (528)
T ss_dssp             HHHHHHHHHCCSSSSSEEEEEET-------TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             ccchhhhcCCeeEEEeEEEEEeC-------CEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHH
Confidence            33456788999999999888887       78999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCcEEEEECCcchhhh
Q psy2609          90 WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ...++|+++|+||+|+...+
T Consensus       131 ~~~~iPiivviNK~Dl~~~~  150 (528)
T 3tr5_A          131 RLRHTPIMTFINKMDRDTRP  150 (528)
T ss_dssp             HTTTCCEEEEEECTTSCCSC
T ss_pred             HHcCCCEEEEEeCCCCcccc
Confidence            88899999999999997543

>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=99.75  E-value=3.3e-18  Score=147.81  Aligned_cols=101  Identities=40%  Similarity=0.648  Sum_probs=77.1

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|.++.|+++|+|+......+.|...  ++..+.++|||||||++|...+..+++.+|++|+|+|+++++..++...|
T Consensus        41 ~~~D~~~~ErerGITI~~~~~~~~~~~~--dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~  118 (600)
T 2ywe_A           41 QLLDTLDVERERGITVKMQAVRMFYKAK--DGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANF  118 (600)
T ss_dssp             ---------------CCCCSEEEEEECT--TSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHH
T ss_pred             cccccchhhhcccceeeeeEEEEEEEcC--CCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHH
Confidence            4556677899999999999888888631  14568999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+|+|+||+|+...+
T Consensus       119 ~~a~~~~ipiIvviNKiDl~~a~  141 (600)
T 2ywe_A          119 WKAVEQDLVIIPVINKIDLPSAD  141 (600)
T ss_dssp             HHHHHTTCEEEEEEECTTSTTCC
T ss_pred             HHHHHCCCCEEEEEeccCccccC
Confidence            88888999999999999997643

>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=99.75  E-value=3.2e-18  Score=144.64  Aligned_cols=100  Identities=30%  Similarity=0.332  Sum_probs=76.3

Q ss_pred             ccccccc------------cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSY------------MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~------------~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~i   69 (161)
                      ++|||++            +|.+++|+++|+|++.....+.+.       ++++.|||||||++|...+..+++.+|++|
T Consensus        29 d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~-------~~~i~iiDtPGh~~~~~~~~~~~~~aD~~i  101 (482)
T 1wb1_A           29 DHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE-------NYRITLVDAPGHADLIRAVVSAADIIDLAL  101 (482)
T ss_dssp             TSSHHHHHHHHHTTC--------------------CCCEEEET-------TEEEEECCCSSHHHHHHHHHHHTTSCCEEE
T ss_pred             CChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEEC-------CEEEEEEECCChHHHHHHHHHHHhhCCEEE
Confidence            5788877            455788999999999888877775       689999999999999999999999999999


Q ss_pred             EEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|+++++..++.+++..+...++|+++|+||+|+...
T Consensus       102 lVvda~~g~~~qt~e~l~~~~~~~ip~IvviNK~Dl~~~  140 (482)
T 1wb1_A          102 IVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGT  140 (482)
T ss_dssp             EEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCH
T ss_pred             EEEecCCCccHHHHHHHHHHHHcCCCEEEEEECCCcccc
Confidence            999999999999999998888889999999999999753

>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=99.71  E-value=2.8e-17  Score=135.75  Aligned_cols=92  Identities=26%  Similarity=0.435  Sum_probs=80.7

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|.+++|+++|+|++.....+.+.       ..++.|||||||++|...+..+++.+|++|+|+|++++...++.+++..
T Consensus        50 ~d~~~~e~~~GiTi~~~~~~~~~~-------~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~  122 (405)
T 2c78_A           50 IDKAPEERARGITINTAHVEYETA-------KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILL  122 (405)
T ss_dssp             HSCSHHHHHHTCCCSCEEEEEECS-------SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHH
T ss_pred             ccCCHHHHHcCCCEEeeeeEeccC-------CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHH
Confidence            466677889999998765555443       6799999999999999999999999999999999999999999999988


Q ss_pred             HHHcCCC-cEEEEECCcchh
Q psy2609          89 AWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        89 ~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +...++| +++|+||+|+..
T Consensus       123 ~~~~~ip~iivviNK~Dl~~  142 (405)
T 2c78_A          123 ARQVGVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             HHHTTCCCEEEEEECGGGCC
T ss_pred             HHHcCCCEEEEEEECccccC
Confidence            8888999 789999999974

>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=99.71  E-value=2.9e-17  Score=135.84  Aligned_cols=108  Identities=24%  Similarity=0.266  Sum_probs=84.2

Q ss_pred             cccccccc--------CCchhHHHcCCccccceEEEEeecCC-----------C-CCC----ceeEEEEeCCCchhhHHH
Q psy2609           2 LCMVSSYM--------DSRKDEQERGITMKSSSISLYYKDNK-----------D-TPE----EYLINLIDSPGHVDFSSE   57 (161)
Q Consensus         2 ~~g~~~~~--------D~~~~E~~~giti~~~~~~~~~~~~~-----------~-~~~----~~~i~iiDTpG~~~~~~~   57 (161)
                      ++|||+++        |.+++|+++|+|++..+..+.+....           + .+.    ..++.|||||||++|...
T Consensus        20 ~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~~   99 (410)
T 1kk1_A           20 DHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTT   99 (410)
T ss_dssp             TSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHHH
T ss_pred             CCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChHHHHHH
Confidence            68898874        45568999999998876666553100           0 011    278999999999999999


Q ss_pred             HHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCC-CcEEEEECCcchhhh
Q psy2609          58 VSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKI-QPILVLNKIDRLILE  109 (161)
Q Consensus        58 ~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~~  109 (161)
                      +..++..+|++|+|+|++++. ..++.+++..+...++ |+++|+||+|+...+
T Consensus       100 ~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~~  153 (410)
T 1kk1_A          100 MLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKE  153 (410)
T ss_dssp             HHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH
T ss_pred             HHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCHH
Confidence            999999999999999999987 7888888877766665 678999999997644

>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=99.70  E-value=1.6e-17  Score=139.57  Aligned_cols=91  Identities=30%  Similarity=0.426  Sum_probs=77.4

Q ss_pred             CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCCh-------hH
Q psy2609          10 DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICA-------QT   82 (161)
Q Consensus        10 D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~-------~~   82 (161)
                      |.+++|+++|+|++.....+.+.       .++++|||||||++|...+..+++.+|++|+|+|++++...       ++
T Consensus        61 d~~~~er~~GiTi~~~~~~~~~~-------~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt  133 (458)
T 1f60_A           61 DKLKAERERGITIDIALWKFETP-------KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQT  133 (458)
T ss_dssp             HHHHHHHHTTCCCSCSCEEEECS-------SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHH
T ss_pred             ccchhHHhcCcEEEEEEEEEecC-------CceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhH
Confidence            44556788999999888766554       78999999999999999999999999999999999976544       77


Q ss_pred             HHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          83 QVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        83 ~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      .+++..+...++| +|+|+||+|+..
T Consensus       134 ~~~~~~~~~~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A          134 REHALLAFTLGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             HHHHHHHHHTTCCEEEEEEECGGGGT
T ss_pred             HHHHHHHHHcCCCeEEEEEEcccccc
Confidence            7777777777887 789999999973

>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=99.70  E-value=1.4e-16  Score=140.00  Aligned_cols=103  Identities=37%  Similarity=0.557  Sum_probs=89.7

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+.+.|+++|+|+.....++.|......++.+.++|||||||.+|...+..+++.+|++|+|+|++.++..++..+|
T Consensus        48 ~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~  127 (704)
T 2rdo_7           48 ATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW  127 (704)
T ss_pred             eeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH
Confidence            56677788999999999988888886311123458999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.+...++|+++|+||+|+...+
T Consensus       128 ~~~~~~~ip~ilviNKiD~~~~~  150 (704)
T 2rdo_7          128 RQANKYKVPRIAFVNKMDRMGAN  150 (704)
T ss_pred             HHHHHcCCCEEEEEeCCCccccc
Confidence            98888899999999999997654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.69  E-value=4e-17  Score=133.85  Aligned_cols=93  Identities=13%  Similarity=0.091  Sum_probs=84.6

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQ   81 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~   81 (161)
                      ++|||++++.+.   ++|+|++.....+.+.       +++++|||||||++|...+..+++.+|++|+|+| +.++..+
T Consensus        31 d~GKSTL~~~L~---~~giTi~~~~~~~~~~-------~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~q   99 (370)
T 2elf_A           31 KSGRTSLAANLG---KKGTSSDITMYNNDKE-------GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLDAH   99 (370)
T ss_dssp             TSSHHHHHHTTS---EEEEESSSEEEEECSS-------SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHH
T ss_pred             CCCHHHHHHHHH---hCCEEEEeeEEEEecC-------CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHH
Confidence            789999999887   8899998877665554       6789999999999999999999999999999999 9999999


Q ss_pred             HHHHHHHHHHcCCCc-EEEEE-CCcc
Q psy2609          82 TQVALKQAWLEKIQP-ILVLN-KIDR  105 (161)
Q Consensus        82 ~~~~~~~~~~~~~p~-ilv~N-K~Dl  105 (161)
                      +.+++..+...++|. |+++| |+|+
T Consensus       100 t~e~~~~~~~~~i~~~ivvvNNK~Dl  125 (370)
T 2elf_A          100 TGECIIALDLLGFKHGIIALTRSDST  125 (370)
T ss_dssp             HHHHHHHHHHTTCCEEEEEECCGGGS
T ss_pred             HHHHHHHHHHcCCCeEEEEEEeccCC
Confidence            999998888889999 89999 9999

>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=99.69  E-value=7e-17  Score=133.55  Aligned_cols=108  Identities=25%  Similarity=0.280  Sum_probs=77.9

Q ss_pred             cccccccc--------CCchhHHHcCCccccceEEEEeecC---------C--C-CCC----ceeEEEEeCCCchhhHHH
Q psy2609           2 LCMVSSYM--------DSRKDEQERGITMKSSSISLYYKDN---------K--D-TPE----EYLINLIDSPGHVDFSSE   57 (161)
Q Consensus         2 ~~g~~~~~--------D~~~~E~~~giti~~~~~~~~~~~~---------~--~-~~~----~~~i~iiDTpG~~~~~~~   57 (161)
                      ++|||+++        |.+++|+++|+|++..+..+.+...         .  + .+.    ...+.|||||||++|...
T Consensus        18 d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~~   97 (408)
T 1s0u_A           18 DHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMAT   97 (408)
T ss_dssp             TSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEEECSSHHHHHHH
T ss_pred             CCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEEECCCHHHHHHH
Confidence            68888874        4567899999999877655443210         0  0 011    278999999999999999


Q ss_pred             HHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCC-CcEEEEECCcchhhh
Q psy2609          58 VSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKI-QPILVLNKIDRLILE  109 (161)
Q Consensus        58 ~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~~  109 (161)
                      +..++..+|++|+|+|++++. ..++.+++..+...++ |+++|+||+|+...+
T Consensus        98 ~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~~~  151 (408)
T 1s0u_A           98 MLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEK  151 (408)
T ss_dssp             HHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSCTT
T ss_pred             HHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCCHH
Confidence            988889999999999999887 7888888777666665 688999999997644

>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=99.68  E-value=3.7e-16  Score=131.86  Aligned_cols=94  Identities=28%  Similarity=0.426  Sum_probs=72.6

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------CC
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------IC   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~~   79 (161)
                      +++|.+..|+++|+|++.....+.+.       .+++.|||||||++|...+..+++.+|++|+|+|++++       +.
T Consensus        84 ~~~d~~~~e~~~GiTi~~~~~~~~~~-------~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~  156 (483)
T 3p26_A           84 WIMDQTNEERERGVTVSICTSHFSTH-------RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLD  156 (483)
T ss_dssp             -----------CCSSCCCCEEEEECS-------SCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCC
T ss_pred             hhhccchhHhhcCcceEeeeEEEecC-------CceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchh
Confidence            44677788999999999887777655       78999999999999999999999999999999999987       55


Q ss_pred             hhHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          80 AQTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      .++.+++..+...++| +|+|+||+|+..
T Consensus       157 ~qt~e~~~~~~~~~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          157 GQTKEHMLLASSLGIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             HHHHHHHHHHHHTTCCCEEEEEECGGGGT
T ss_pred             hhHHHHHHHHHHcCCCcEEEEEECcCccc
Confidence            7888888877777755 889999999975

>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=99.68  E-value=1.8e-16  Score=132.15  Aligned_cols=92  Identities=28%  Similarity=0.379  Sum_probs=75.2

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|.+++|+++|+|++.....+.+.       ..++.|||||||++|...+..+++.+|++|+|+|++++...++.+++..
T Consensus        79 ~d~~~~E~~rGiTi~~~~~~~~~~-------~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~  151 (434)
T 1zun_B           79 VDGLQAEREQGITIDVAYRYFSTA-------KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYI  151 (434)
T ss_dssp             HHHHHC-----CCCCCEEEEEECS-------SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHH
T ss_pred             hccChhHHHCCcEEEeeeeEeecC-------CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHH
Confidence            455667888999999766655544       7899999999999999999999999999999999999998999888887


Q ss_pred             HHHcCCC-cEEEEECCcchh
Q psy2609          89 AWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        89 ~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +...++| +|+|+||+|+..
T Consensus       152 ~~~~~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          152 ASLLGIKHIVVAINKMDLNG  171 (434)
T ss_dssp             HHHTTCCEEEEEEECTTTTT
T ss_pred             HHHcCCCeEEEEEEcCcCCc
Confidence            7777875 789999999975

>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=99.68  E-value=1.6e-16  Score=135.66  Aligned_cols=96  Identities=29%  Similarity=0.525  Sum_probs=74.9

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+++.|+++|+|+......+.|.       ++.++|||||||++|...+..+++.+|++|+|+|+++++..++..++
T Consensus        55 ~~~D~~~~E~~rGiTi~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~  127 (529)
T 2h5e_A           55 AKSDWMEMEKQRGISITTSVMQFPYH-------DCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLM  127 (529)
T ss_dssp             ---------------CCTTEEEEEET-------TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH
T ss_pred             eeeccchhcccCCcceeeeEEEEEEC-------CeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHH
Confidence            44566777889999999988888887       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+++|+||+|+...+
T Consensus       128 ~~~~~~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A          128 EVTRLRDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             HHHTTTTCCEEEEEECTTSCCSC
T ss_pred             HHHHHcCCCEEEEEcCcCCcccc
Confidence            88888899999999999997643

>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=99.67  E-value=3.9e-17  Score=134.70  Aligned_cols=87  Identities=28%  Similarity=0.396  Sum_probs=74.7

Q ss_pred             hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC
Q psy2609          14 DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK   93 (161)
Q Consensus        14 ~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~   93 (161)
                      +|+++|+|++.....+.+.       .+++.|||||||++|...+..+++.+|++|+|+|++++...++.+++..+...+
T Consensus        46 ~e~~~giTi~~~~~~~~~~-------~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~  118 (397)
T 1d2e_A           46 EERARGITINAAHVEYSTA-------ARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIG  118 (397)
T ss_dssp             EEEETTEEEECEEEEEECS-------SCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTT
T ss_pred             HHHhcCcEEEeeeEEeccC-------CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            3457888988755444333       679999999999999999999999999999999999999999999998888889


Q ss_pred             CC-cEEEEECCcchh
Q psy2609          94 IQ-PILVLNKIDRLI  107 (161)
Q Consensus        94 ~p-~ilv~NK~Dl~~  107 (161)
                      +| +++|+||+|+..
T Consensus       119 vp~iivviNK~Dl~~  133 (397)
T 1d2e_A          119 VEHVVVYVNKADAVQ  133 (397)
T ss_dssp             CCCEEEEEECGGGCS
T ss_pred             CCeEEEEEECcccCC
Confidence            99 579999999974

>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=99.67  E-value=1.1e-16  Score=134.62  Aligned_cols=94  Identities=23%  Similarity=0.340  Sum_probs=54.8

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------C
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------C   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------~   79 (161)
                      +++|.+++|+++|+|++.....+.+.       ++++.|||||||++|...+..+++.+|++|+|+|++++.       .
T Consensus        94 ~~~D~~~~er~~giTi~~~~~~~~~~-------~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~  166 (467)
T 1r5b_A           94 WALDSTSEEREKGKTVEVGRAYFETE-------HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERG  166 (467)
T ss_dssp             -------------------CCEEECS-------SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTT
T ss_pred             hhcccchhhhhcCceEEeeeEEEecC-------CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCC
Confidence            44567778899999999887766655       689999999999999999999999999999999999875       2


Q ss_pred             hhHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          80 AQTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      .++.+++..+...++| +|+|+||+|+..
T Consensus       167 ~qt~e~l~~~~~~~vp~iivviNK~Dl~~  195 (467)
T 1r5b_A          167 GQTREHAVLARTQGINHLVVVINKMDEPS  195 (467)
T ss_dssp             CCHHHHHHHHHHTTCSSEEEEEECTTSTT
T ss_pred             CcHHHHHHHHHHcCCCEEEEEEECccCCC
Confidence            5788888877788998 789999999964

>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=99.66  E-value=8.6e-17  Score=134.13  Aligned_cols=93  Identities=31%  Similarity=0.495  Sum_probs=69.8

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------CCh
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------ICA   80 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~~~   80 (161)
                      ++|.+++|+++|+|++.....+.+.       .++++|||||||++|...+..+++.+|++|+|+|++++       +..
T Consensus        58 ~~D~~~~E~~~giTi~~~~~~~~~~-------~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~  130 (435)
T 1jny_A           58 LLDRLKEERERGVTINLTFMRFETK-------KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEG  130 (435)
T ss_dssp             HHHHHHHC-----------CEEECS-------SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTC
T ss_pred             hhccChHHHhcCceeEeeEEEEecC-------CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccch
Confidence            3455667778999999877666555       78999999999999999999999999999999999988       667


Q ss_pred             hHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          81 QTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        81 ~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      ++.+++..+...++| +++|+||+|+..
T Consensus       131 qt~~~~~~~~~~~~~~iivviNK~Dl~~  158 (435)
T 1jny_A          131 QTREHIILAKTMGLDQLIVAVNKMDLTE  158 (435)
T ss_dssp             HHHHHHHHHHHTTCTTCEEEEECGGGSS
T ss_pred             HHHHHHHHHHHcCCCeEEEEEEcccCCC
Confidence            888888877777875 789999999976

>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=99.65  E-value=9.2e-16  Score=134.58  Aligned_cols=96  Identities=38%  Similarity=0.609  Sum_probs=73.5

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+++.|+++|+|+.....++.|.       .++++|||||||.+|...+..+++.+|++|+|+|++.+...++...|
T Consensus        50 ~~~d~~~~E~~~giTi~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~  122 (691)
T 1dar_A           50 ATMDFMEQERERGITITAAVTTCFWK-------DHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW  122 (691)
T ss_dssp             -----------------CCEEEEEET-------TEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH
T ss_pred             eeccCchhhhhcccccccceEEEEEC-------CeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHH
Confidence            44556666778999999988888887       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+++|+||+|+...+
T Consensus       123 ~~~~~~~~p~ivviNKiD~~~~~  145 (691)
T 1dar_A          123 RQAEKYKVPRIAFANKMDKTGAD  145 (691)
T ss_dssp             HHHHHTTCCEEEEEECTTSTTCC
T ss_pred             HHHHHcCCCEEEEEECCCcccCC
Confidence            98888899999999999997643

>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=99.64  E-value=4.6e-17  Score=130.01  Aligned_cols=100  Identities=20%  Similarity=0.139  Sum_probs=77.4

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |||||++++.+..+.      .++.|.+.....+.+       +..+++||||||+++        |...+..+++.+|+
T Consensus        17 nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~-------~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~   89 (301)
T 1wf3_A           17 NVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE-------GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNA   89 (301)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-------TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSE
T ss_pred             CCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEe-------CCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCE
Confidence            799999987776443      234444432222222       278999999999876        67788899999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++++....+..++..+...  ++|+++|+||+|+...
T Consensus        90 il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~  132 (301)
T 1wf3_A           90 VVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKY  132 (301)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSS
T ss_pred             EEEEEECCCCCChHHHHHHHHHHhhcCCCCEEEEEECcccCCc
Confidence            9999999988887777777777666  8999999999999754

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.63  E-value=1.3e-15  Score=133.57  Aligned_cols=96  Identities=38%  Similarity=0.592  Sum_probs=74.2

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      +++|+.+.|+++|+|+......+.|.       +++++|||||||.+|...+..+++.+|++|+|+|++.+...++...|
T Consensus        48 ~~~D~~~~e~~~giTi~~~~~~~~~~-------~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~  120 (693)
T 2xex_A           48 SQMDWMEQEQDRGITITSAATTAAWE-------GHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVW  120 (693)
T ss_dssp             ----------------CCSEEEEEET-------TEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHH
T ss_pred             eecccchhhhhcCceEeeeeEEEEEC-------CeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHH
Confidence            34556667778999999988888887       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcchhhh
Q psy2609          87 KQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...++|+++|+||+|+...+
T Consensus       121 ~~~~~~~~p~ilviNK~Dl~~~~  143 (693)
T 2xex_A          121 RQATTYGVPRIVFVNKMDKLGAN  143 (693)
T ss_dssp             HHHHHTTCCEEEEEECTTSTTCC
T ss_pred             HHHHHcCCCEEEEEECCCccccc
Confidence            98888899999999999997643

>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=99.62  E-value=2.2e-16  Score=126.19  Aligned_cols=99  Identities=19%  Similarity=0.216  Sum_probs=76.4

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh----------hHHHHHHHHHhc
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD----------FSSEVSTAVRLC   65 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~----------~~~~~~~~l~~~   65 (161)
                      |||||++++.+..+.      .++.|.......+.+      +..++++||||||+.+          +...+..+++.+
T Consensus        20 nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~------~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~a   93 (308)
T 3iev_A           20 NVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNI------PNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEA   93 (308)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE------TTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEec------CCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcC
Confidence            799999998775443      334554433222222      2278999999999843          557789999999


Q ss_pred             CEEEEEEeCCCCCChhHHHH-HHHHHHcCCCcEEEEECCcch
Q psy2609          66 DGTIIVVDCVEGICAQTQVA-LKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~-~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      |++++|+|++++....+... +..+...++|+++|+||+|+.
T Consensus        94 D~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvilV~NK~Dl~  135 (308)
T 3iev_A           94 DVILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVVINKIDKI  135 (308)
T ss_dssp             SEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEEEEEECGGGS
T ss_pred             CEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEEEEEECccCC
Confidence            99999999998888888777 677777789999999999997

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.60  E-value=1.2e-17  Score=144.20  Aligned_cols=95  Identities=25%  Similarity=0.351  Sum_probs=50.5

Q ss_pred             ccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------
Q psy2609           6 SSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------   78 (161)
Q Consensus         6 ~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------   78 (161)
                      ++++|.+++|+++|+|++.....+.+.       +++++|||||||++|...+..+++.+|++|+|+|++.+.       
T Consensus       227 ~~~~D~~~~E~~~GiTid~~~~~~~~~-------~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~  299 (592)
T 3mca_A          227 AWLLDTTEEERARGVTMDVASTTFESD-------KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLE  299 (592)
T ss_dssp             ---------------------------------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCS
T ss_pred             hhhhccchhhhcCCeeEEeeEEEEEeC-------CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCcccccccc
Confidence            346677888999999999887777665       679999999999999999999999999999999999754       


Q ss_pred             ChhHHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          79 CAQTQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        79 ~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      ..++.+++..+...++| +|+|+||+|+..
T Consensus       300 ~~qt~e~l~~~~~lgip~iIvviNKiDl~~  329 (592)
T 3mca_A          300 NGQTREHAYLLRALGISEIVVSVNKLDLMS  329 (592)
T ss_dssp             CSSHHHHHHHHHHSSCCCEEEEEECGGGGT
T ss_pred             chHHHHHHHHHHHcCCCeEEEEEecccccc
Confidence            78899998888888998 788999999975

>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=99.60  E-value=4.7e-17  Score=138.04  Aligned_cols=100  Identities=23%  Similarity=0.340  Sum_probs=85.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+|+|++.....+.+.       +.+++|||||||++|...+..+++.+|++++|+|+++
T Consensus        14 d~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~-------~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~   86 (501)
T 1zo1_I           14 DHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETE-------NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADD   86 (501)
T ss_dssp             TSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTT-------SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTT
T ss_pred             CCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEEC-------CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeeccc
Confidence            689999998886432     3678887766555444       5689999999999999998889999999999999999


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+++.+++..+...++|+|+|+||+|+...
T Consensus        87 g~~~qT~e~l~~~~~~~vPiIVviNKiDl~~~  118 (501)
T 1zo1_I           87 GVMPQTIEAIQHAKAAQVPVVVAVNKIDKPEA  118 (501)
T ss_dssp             BSCTTTHHHHHHHHHTTCCEEEEEECSSSSTT
T ss_pred             CccHHHHHHHHHHHhcCceEEEEEEecccccc
Confidence            99999999998888889999999999999754

>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=99.59  E-value=2.9e-15  Score=124.93  Aligned_cols=99  Identities=22%  Similarity=0.253  Sum_probs=78.4

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh---------hHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD---------FSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~---------~~~~~~~~l~~~d   66 (161)
                      |+|||++++++..      +..+|+|++.....+.|.       +.++.+|||||++.         +..++..+++.+|
T Consensus        11 nvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~-------~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad   83 (439)
T 1mky_A           11 NVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWY-------GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREAD   83 (439)
T ss_dssp             TSSHHHHHHHHHC--------------CCSEEEEEET-------TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCS
T ss_pred             CCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEEC-------CeEEEEEECCCccccccchHHHHHHHHHHHHHHhCC
Confidence            7999999877753      446789999888888887       66899999999763         5677889999999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++++|+|++.+.+..+..+..++...++|+++|+||+|+..
T Consensus        84 ~il~V~D~~~~~~~~d~~i~~~l~~~~~p~ilv~NK~D~~~  124 (439)
T 1mky_A           84 LVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLR  124 (439)
T ss_dssp             EEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCcc
Confidence            99999999998888887777777778999999999999864

>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=99.58  E-value=6.9e-16  Score=117.73  Aligned_cols=102  Identities=20%  Similarity=0.165  Sum_probs=69.2

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||.++     +.+..+..+++..+.....+...     +..+++.||||||+++|...+..+++.++++++|+|.+.
T Consensus        23 ~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~-----~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~   97 (216)
T 4dkx_A           23 SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-----DRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITN   97 (216)
T ss_dssp             TSSHHHHHHHHHHSCCC----------CEEEEEECS-----SCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEec-----ceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecch
Confidence            57899886     55667777777766555555554     568899999999999999999999999999999999985


Q ss_pred             CCChhHH-HHHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+   ...++|++||+||+|+...
T Consensus        98 ~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~  133 (216)
T 4dkx_A           98 VNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK  133 (216)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGG
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhc
Confidence            4332222 222222   2357899999999999753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.58  E-value=1.7e-15  Score=131.23  Aligned_cols=92  Identities=28%  Similarity=0.450  Sum_probs=78.9

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------CChh
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------ICAQ   81 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~~~~   81 (161)
                      +|.++.|+++|+|++.....+.+.       .++++|||||||++|...+..+++.+|++|+|+|++.+       +..+
T Consensus       220 ~d~~~~e~~~GiTid~~~~~~~~~-------~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~q  292 (611)
T 3izq_1          220 MDQTNEERERGVTVSICTSHFSTH-------RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQ  292 (611)
T ss_dssp             HHHHHHHHHTTTCCSCSCCEEECS-------SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSH
T ss_pred             eccchhhhhCCeeEeeeeEEEecC-------CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhH
Confidence            345567889999999888877765       78999999999999999999999999999999999875       3567


Q ss_pred             HHHHHHHHHHcCCC-cEEEEECCcchh
Q psy2609          82 TQVALKQAWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        82 ~~~~~~~~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +.+++..+...++| +|+|+||+|+..
T Consensus       293 t~e~l~~~~~lgi~~iIVVvNKiDl~~  319 (611)
T 3izq_1          293 TKEHMLLASSLGIHNLIIAMNKMDNVD  319 (611)
T ss_dssp             HHHHHHHHHTTTCCEEEEEEECTTTTT
T ss_pred             HHHHHHHHHHcCCCeEEEEEecccccc
Confidence            88887777777776 889999999975

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.57  E-value=5.5e-15  Score=105.25  Aligned_cols=100  Identities=16%  Similarity=0.054  Sum_probs=73.3

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~   68 (161)
                      ++|||++++.+.      .+..++.+.+.....+.+.       +..+.+|||||+.+       +...+..+++.+|++
T Consensus        11 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~   83 (161)
T 2dyk_A           11 NVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETD-------RGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVV   83 (161)
T ss_dssp             TSSHHHHHHHHHHCCC-----------CCEEEEEEET-------TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEE
T ss_pred             CCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeC-------CceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEE
Confidence            689999986653      2334566665554555554       56899999999987       566778889999999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|++.+.......+...+...++|+++|+||+|+...
T Consensus        84 i~v~d~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           84 LFAVDGRAELTQADYEVAEYLRRKGKPVILVATKVDDPKH  123 (161)
T ss_dssp             EEEEESSSCCCHHHHHHHHHHHHHTCCEEEEEECCCSGGG
T ss_pred             EEEEECCCcccHhHHHHHHHHHhcCCCEEEEEECcccccc
Confidence            9999999887776666777777779999999999999754

>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=99.56  E-value=1.2e-15  Score=125.87  Aligned_cols=69  Identities=30%  Similarity=0.390  Sum_probs=61.6

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCC-CcEEEEECCcchhhh
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKI-QPILVLNKIDRLILE  109 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~~  109 (161)
                      ..+.|||||||++|...+..+++.+|++++|+|++++. ..++.+++..+...+. |+++|+||+|+...+
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~  145 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKE  145 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHH
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccchH
Confidence            78999999999999999999999999999999999987 7888888877776665 789999999997654

>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=99.56  E-value=4.6e-15  Score=135.26  Aligned_cols=92  Identities=28%  Similarity=0.417  Sum_probs=69.4

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|.+++|+++|+|++.....+...       .++++|||||||++|...+..+++.+|++|+|+|++++...++.+++..
T Consensus       334 lD~~~~ErerGITIdva~v~f~~~-------~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~l  406 (1289)
T 3avx_A          334 IDNAPEEKARGITINTSHVEYDTP-------TRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILL  406 (1289)
T ss_dssp             --------------CCSCEEEECS-------SCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHH
T ss_pred             cccccccccCceeEEEEEEEEcCC-------CEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHH
Confidence            455667889999999876655443       7899999999999999999999999999999999999999999999888


Q ss_pred             HHHcCCC-cEEEEECCcchh
Q psy2609          89 AWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        89 ~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +...++| +|+|+||+|+..
T Consensus       407 l~~lgIP~IIVVINKiDLv~  426 (1289)
T 3avx_A          407 GRQVGVPYIIVFLNKCDMVD  426 (1289)
T ss_dssp             HHHHTCSCEEEEEECCTTCC
T ss_pred             HHHcCCCeEEEEEeeccccc
Confidence            8888999 589999999974

>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=99.56  E-value=5.6e-14  Score=122.80  Aligned_cols=93  Identities=22%  Similarity=0.334  Sum_probs=85.1

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      ++.|..+.|+++|+|+......+.+.       .+.++|||||||++|...+..+++.+|++++|+|++.++..++..++
T Consensus        47 ~~~d~~~~e~~~giti~~~~~~~~~~-------~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~  119 (665)
T 2dy1_A           47 TTTDYTPEAKLHRTTVRTGVAPLLFR-------GHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAW  119 (665)
T ss_dssp             CSSCCSHHHHHTTSCCSCEEEEEEET-------TEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH
T ss_pred             ccccCCHHHHhcCCeEEecceEEeeC-------CEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhHHHHH
Confidence            45577778889999998887777776       78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCcEEEEECCcch
Q psy2609          87 KQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        87 ~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      +.+...++|+++|+||+|+.
T Consensus       120 ~~~~~~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A          120 TVAERLGLPRMVVVTKLDKG  139 (665)
T ss_dssp             HHHHHTTCCEEEEEECGGGC
T ss_pred             HHHHHccCCEEEEecCCchh
Confidence            99888899999999999987

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.56  E-value=6.1e-16  Score=112.12  Aligned_cols=99  Identities=23%  Similarity=0.369  Sum_probs=79.4

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     ...++++.+.....+.+.       +..+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        18 ~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (178)
T 2lkc_A           18 DHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVN-------DKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADD   90 (178)
T ss_dssp             TTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEET-------TEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeC-------CceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCC
Confidence            6899999865532     334556666655556555       5789999999999988888888899999999999998


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      +........+..+...++|+++|+||+|+..
T Consensus        91 ~~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~  121 (178)
T 2lkc_A           91 GVMPQTVEAINHAKAANVPIIVAINKMDKPE  121 (178)
T ss_dssp             CCCHHHHHHHHHHGGGSCCEEEEEETTTSSC
T ss_pred             CCcHHHHHHHHHHHhCCCCEEEEEECccCCc
Confidence            7777777777777777999999999999975

>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=99.55  E-value=1.5e-14  Score=107.37  Aligned_cols=103  Identities=14%  Similarity=0.054  Sum_probs=71.9

Q ss_pred             cccccccc----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHH---HHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYM----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEV---STAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~---~~~l~~~d~~ilVvd~   74 (161)
                      ++|||+++    +.+..+...+.........+.+..    +..+++.+|||||+++|....   ..+++.+|++|+|+|+
T Consensus        30 ~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~  105 (196)
T 3llu_A           30 RSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISN----SSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDA  105 (196)
T ss_dssp             TSSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECC----TTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEET
T ss_pred             CCCHHHHHHHHHhcCCCcceeeeccccceeeeeccC----CCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEEC
Confidence            68999994    455444444444444444443331    447899999999999988777   8999999999999999


Q ss_pred             CCCCChhHHHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          75 VEGICAQTQVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        75 ~~~~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      ++........+..++..     .++|+++|+||+|+...
T Consensus       106 ~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~  144 (196)
T 3llu_A          106 QDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSD  144 (196)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCH
T ss_pred             CCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCch
Confidence            97632222333333322     38899999999998754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.55  E-value=1e-14  Score=107.85  Aligned_cols=102  Identities=19%  Similarity=0.137  Sum_probs=72.1

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.++.+.....+.+.     +..+++.+|||||++++...+..+++.+|++|+|+|+++
T Consensus        36 ~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~  110 (192)
T 2il1_A           36 GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELR-----GKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITK  110 (192)
T ss_dssp             TSSHHHHHHHHCC--------CCTTEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEEC-----CeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            689999975553     3445555555444555554     446899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+..   .++|+++|+||+|+...
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~  146 (192)
T 2il1_A          111 KETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD  146 (192)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccc
Confidence            54333222 2222222   47899999999999653

>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=99.55  E-value=1.4e-15  Score=110.04  Aligned_cols=100  Identities=18%  Similarity=0.059  Sum_probs=69.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.......+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        17 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   91 (177)
T 1wms_A           17 GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-----GHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDD   91 (177)
T ss_dssp             TSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEET-----TEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEEC-----CEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcC
Confidence            689999986653     3445555554434444444     446799999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---H----cCCCcEEEEECCcch
Q psy2609          77 GICAQTQV-ALKQAW---L----EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~----~~~p~ilv~NK~Dl~  106 (161)
                      ..+..... ++..+.   .    .++|+++|+||+|+.
T Consensus        92 ~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~  129 (177)
T 1wms_A           92 SQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS  129 (177)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS
T ss_pred             HHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc
Confidence            43322211 122221   1    578999999999996

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.54  E-value=6e-15  Score=111.04  Aligned_cols=102  Identities=17%  Similarity=0.146  Sum_probs=74.9

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~~~~~l~~   64 (161)
                      ++|||++++.+....       .+|.|.......+..      .+...+.||||||+          +.+...+..+++.
T Consensus        39 ~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~------~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~  112 (223)
T 4dhe_A           39 NAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGP------AAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQT  112 (223)
T ss_dssp             HHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESC------TTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecC------CCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhc
Confidence            579999886664432       234554433222210      23578999999995          5567777788887


Q ss_pred             ---cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 ---CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ---~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                         +|++++|+|++++.......++..+...++|+++|+||+|+....
T Consensus       113 ~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i~v~nK~Dl~~~~  160 (223)
T 4dhe_A          113 RPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIHSLLTKCDKLTRQ  160 (223)
T ss_dssp             CTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEEEEEECGGGSCHH
T ss_pred             CcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEeccccCChh
Confidence               778999999998888777778888877899999999999997543

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.54  E-value=7.8e-17  Score=137.70  Aligned_cols=102  Identities=23%  Similarity=0.329  Sum_probs=86.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+|+|.+.....+.+.      ...+++|||||||++|...+..+++.+|++|+|+|+++
T Consensus        14 ~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~------~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~d   87 (537)
T 3izy_P           14 DHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP------SGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADD   87 (537)
T ss_dssp             TTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS------CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSS
T ss_pred             CCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC------CCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCC
Confidence            68999999887533     35688887776655542      24589999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +..+++.+++..+...++|+++|+||+|+...+
T Consensus        88 g~~~qt~e~l~~~~~~~vPiIVViNKiDl~~~~  120 (537)
T 3izy_P           88 GVMKQTVESIQHAKDAHVPIVLAINKCDKAEAD  120 (537)
T ss_dssp             CCCHHHHHHHHHHHTTTCCEEECCBSGGGTTTS
T ss_pred             CccHHHHHHHHHHHHcCCcEEEEEecccccccc
Confidence            999999999999988999999999999997543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.53  E-value=3.2e-15  Score=110.29  Aligned_cols=100  Identities=15%  Similarity=0.107  Sum_probs=69.5

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....    ...-|+......+.       ...+++.||||||++++...+..+++.+|++|+|+|+++.
T Consensus        27 ~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~~~-------~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   99 (199)
T 4bas_A           27 NSGKTTIINQVKPAQSSSKHITATVGYNVETFE-------KGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDH   99 (199)
T ss_dssp             TSCHHHHHHHHSCCC----CCCCCSSEEEEEEE-------ETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCG
T ss_pred             CCCHHHHHHHHhcCCCcccccccccceeEEEEE-------eCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcH
Confidence            689999875543211    12233333333333       3378999999999999999999999999999999999976


Q ss_pred             CChhHH-HHHHHHHHc-----------CCCcEEEEECCcchhh
Q psy2609          78 ICAQTQ-VALKQAWLE-----------KIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~-~~~~~~~~~-----------~~p~ilv~NK~Dl~~~  108 (161)
                      .+.... ..+..+...           ++|+++|+||+|+...
T Consensus       100 ~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  142 (199)
T 4bas_A          100 LRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGA  142 (199)
T ss_dssp             GGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCC
Confidence            443332 222222222           8999999999999754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.53  E-value=3.8e-15  Score=124.14  Aligned_cols=100  Identities=24%  Similarity=0.266  Sum_probs=70.8

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch--------hhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV--------DFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~--------~~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+..      +..+|+|++.....+.|.       +..+.+|||||++        ++...+..+++.+|+
T Consensus        13 nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~-------~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~   85 (436)
T 2hjg_A           13 NVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWL-------NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADV   85 (436)
T ss_dssp             TSSHHHHHHHHEEEECC-----------CEEEECTTC-------SSCCEEEC---------CHHHHHHHHHHHHHHHCSE
T ss_pred             CCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEEC-------CceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCE
Confidence            7899999876643      446788887666555555       5689999999985        678889999999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|+|++.+.+..+..+...+...++|+++|+||+|+...
T Consensus        86 il~vvD~~~~~~~~d~~~~~~l~~~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           86 IIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             EEEEEETTTCSCHHHHHHHHHHTTCCSCEEEEEECCCC---
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCccc
Confidence            99999999999888888878777789999999999998753

>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=99.53  E-value=4.7e-15  Score=124.21  Aligned_cols=100  Identities=22%  Similarity=0.217  Sum_probs=78.8

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCC----------chhhHHHHH-HHHHh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG----------HVDFSSEVS-TAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG----------~~~~~~~~~-~~l~~   64 (161)
                      ++||+++++.+..+      ..+|+|.+.....+.+.       +.++.||||||          +++|..... .+++.
T Consensus       205 ~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~-------~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~  277 (456)
T 4dcu_A          205 NVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYN-------QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR  277 (456)
T ss_dssp             TSSHHHHHHHHHTSTTEEECC------CTTSEEEEET-------TEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEEC-------CceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhh
Confidence            68999998766533      45688888777777776       56999999999          677776644 58899


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|++++|+|++++...++..++..+...++|+++|+||+|+...
T Consensus       278 ad~~llviD~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~  321 (456)
T 4dcu_A          278 SEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDK  321 (456)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCC
T ss_pred             CCEEEEEEeCCCCcCHHHHHHHHHHHHcCCCEEEEEEChhcCCC
Confidence            99999999999999999998888888889999999999999753

>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=99.53  E-value=5e-15  Score=108.68  Aligned_cols=71  Identities=17%  Similarity=0.191  Sum_probs=55.9

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHH----HHHHH-----cCCCcEEEEECCcchhh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVAL----KQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~----~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+++.+|||||+++|...+..+++.+|++|+|+|++++........+    .++..     .++|+++|+||+|+...
T Consensus        71 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~  150 (198)
T 3t1o_A           71 GFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDA  150 (198)
T ss_dssp             SCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTC
T ss_pred             CCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccc
Confidence            5578999999999999999999999999999999999855433333322    22222     58899999999999653

>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=99.52  E-value=1.9e-14  Score=107.40  Aligned_cols=102  Identities=17%  Similarity=0.164  Sum_probs=67.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+++.||||||++++...+..+++.+|++|+|+|+++
T Consensus        39 ~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~  113 (201)
T 2hup_A           39 SVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQ-----GKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITK  113 (201)
T ss_dssp             TSSHHHHHHHHHHSCC----------CEEEEEEEET-----TEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTB
T ss_pred             CCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEEC-----CEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCC
Confidence            689999985553     3444444444434444444     446899999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|+++|+||+|+...
T Consensus       114 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~  149 (201)
T 2hup_A          114 RSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL  149 (201)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccc
Confidence            432221 122222322   46899999999999753

>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=99.52  E-value=3.3e-14  Score=106.45  Aligned_cols=103  Identities=17%  Similarity=0.126  Sum_probs=67.5

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH-HHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS-EVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~-~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||+++..+....  ....++......+.+..    ...+++.+|||||++++.. .+..+++.+|++++|+|++. .
T Consensus        17 ~~GKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~-~   91 (214)
T 2fh5_B           17 DSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNN----NRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAA-F   91 (214)
T ss_dssp             TSSHHHHHHHHHHSCCCCBCCCCSCEEEEEECSS----TTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTT-H
T ss_pred             CCCHHHHHHHHhCCCcccccCCcceeeEEEEecC----CCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCC-c
Confidence            689999986664332  11223222333333331    2268899999999999988 78888999999999999985 1


Q ss_pred             ChhHHHH---HHHH-H-----HcCCCcEEEEECCcchhhh
Q psy2609          79 CAQTQVA---LKQA-W-----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~~~~~~---~~~~-~-----~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .......   |... .     ..++|+++|+||+|+....
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  131 (214)
T 2fh5_B           92 QREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  131 (214)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             CHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcc
Confidence            1112222   2211 1     2368999999999997543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.52  E-value=2e-15  Score=111.16  Aligned_cols=102  Identities=19%  Similarity=0.129  Sum_probs=73.4

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..++++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++++|+|+++
T Consensus        26 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  100 (196)
T 3tkl_A           26 GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD-----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD  100 (196)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEET-----TEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEEC-----CEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcC
Confidence            6899999866543     334555555554555554     446889999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|+++|+||+|+...
T Consensus       101 ~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~  136 (196)
T 3tkl_A          101 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK  136 (196)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccc
Confidence            432222 222222222   37899999999999754

>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=99.52  E-value=2.1e-15  Score=130.24  Aligned_cols=106  Identities=26%  Similarity=0.276  Sum_probs=82.0

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeec---------CC--CCCCceeEEEEeCCCchhhHHHHHHHHHhc
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKD---------NK--DTPEEYLINLIDSPGHVDFSSEVSTAVRLC   65 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~---------~~--~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~   65 (161)
                      ++|||++++.+....-     +|+|.......+.+..         ..  .......++|||||||++|...+..+++.+
T Consensus        15 d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~~~~r~~~~a   94 (594)
T 1g7s_A           15 DHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGALA   94 (594)
T ss_dssp             TSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCSSSBSC
T ss_pred             CCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHHHHHHHHhhC
Confidence            7899999988865432     2666665555444320         00  000122599999999999998888889999


Q ss_pred             CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          66 DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      |++|+|+|+++|+..++...+..+...++|+++|+||+|+..
T Consensus        95 D~aILVvDa~~Gv~~qT~e~l~~l~~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           95 DLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             SEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGST
T ss_pred             CEEEEEEECCCCccHhHHHHHHHHHHcCCeEEEEeccccccc
Confidence            999999999999999999999999889999999999999964

>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=99.52  E-value=1.2e-14  Score=104.02  Aligned_cols=102  Identities=20%  Similarity=0.106  Sum_probs=71.5

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+     ..+..+.++.......+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        13 ~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (170)
T 1ek0_A           13 AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTIN-----EHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTK   87 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCC
Confidence            68999998544     33344444444333344444     446799999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+..   .++|+++|+||+|+...
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (170)
T 1ek0_A           88 PQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE  123 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGS
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccc
Confidence            43322222 2222222   47899999999999754

>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=99.52  E-value=1.2e-14  Score=105.44  Aligned_cols=102  Identities=20%  Similarity=0.067  Sum_probs=71.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.......+.+.     +..+++.||||||++++...+..+++.+|++++|+|+++
T Consensus        22 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   96 (181)
T 2efe_B           22 GAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVN-----DATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTN   96 (181)
T ss_dssp             TSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEET-----TEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEEC-----CEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCC
Confidence            689999975553     3334444444333444444     446799999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|+++|+||+|+...
T Consensus        97 ~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~  132 (181)
T 2efe_B           97 QASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDA  132 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccccc
Confidence            443222 223333333   37889999999999643

>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=99.52  E-value=3e-14  Score=101.77  Aligned_cols=100  Identities=15%  Similarity=0.040  Sum_probs=69.2

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....-  ..-|+......+.+.       .+++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        10 ~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   82 (164)
T 1r8s_A           10 AAGKTTILYKLKLGEIVTTIPTIGFNVETVEYK-------NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRER   82 (164)
T ss_dssp             TSSHHHHHHHHHHHCSSCCCCCSSCCEEEEECS-------SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHHcCCcCcccCcCceeEEEEEEC-------CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHH
Confidence            6899999877654321  112333333333333       6899999999999999999999999999999999986533


Q ss_pred             hhHH-HHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          80 AQTQ-VALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .... ..+..+..    .++|+++|+||+|+...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           83 VNEAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence            2222 22222222    37899999999999653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.51  E-value=1.2e-15  Score=110.43  Aligned_cols=102  Identities=21%  Similarity=0.093  Sum_probs=72.8

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+     ..+..++++.+.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        19 ~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   93 (181)
T 3tw8_B           19 GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEIN-----GEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTS   93 (181)
T ss_dssp             TSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEET-----TEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEEC-----CEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCC
Confidence            68999987544     34445666665555555555     446899999999999998888999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      +.+..... ++..+..  .++|+++|+||+|+...
T Consensus        94 ~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  128 (181)
T 3tw8_B           94 AESFVNVKRWLHEINQNCDDVCRILVGNKNDDPER  128 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchh
Confidence            43332222 2222222  36899999999998754

>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=99.51  E-value=1.2e-14  Score=106.93  Aligned_cols=102  Identities=20%  Similarity=0.116  Sum_probs=70.5

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-HHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-SEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||++++.+..     +..+.++.+.....+.+.     +..+++.||||||++++. ..+..+++.+|++|+|+|++
T Consensus        30 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~  104 (189)
T 1z06_A           30 NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDID-----GERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT  104 (189)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEET-----TEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETT
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEEC-----CEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECc
Confidence            6899999866542     333444444333444444     446899999999999998 78899999999999999998


Q ss_pred             CCCChhHH-HHHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQ-VALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.... .++..+    ...++|+++|+||+|+...
T Consensus       105 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  142 (189)
T 1z06_A          105 NMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA  142 (189)
T ss_dssp             CHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGG
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            64322111 111222    1357899999999999654

>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=99.51  E-value=2.6e-15  Score=110.80  Aligned_cols=102  Identities=18%  Similarity=0.129  Sum_probs=71.8

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....-     +.++.......+...     +..+.+.||||||++++...+..+++.+|++++|+|+++
T Consensus        33 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  107 (191)
T 3dz8_A           33 SVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRH-----EKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN  107 (191)
T ss_dssp             TSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEET-----TTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEEC-----CEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcC
Confidence            6899999987765441     222222222333333     557899999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... ..++..+..   .++|+++|+||+|+...
T Consensus       108 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  143 (191)
T 3dz8_A          108 EESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE  143 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc
Confidence            432221 222333333   47899999999999654

>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=99.51  E-value=2.1e-15  Score=108.14  Aligned_cols=100  Identities=17%  Similarity=0.078  Sum_probs=67.6

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        13 ~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (170)
T 1g16_A           13 GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN-----GKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   87 (170)
T ss_dssp             TSSHHHHHHHHHHCCCCC-------CCEEEEEEESS-----SCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCC
Confidence            689999976553     3445555554444444444     457899999999999998889999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcch
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~  106 (161)
                      ..+... ..++..+..   .++|+++|+||+|+.
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  121 (170)
T 1g16_A           88 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME  121 (170)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC
Confidence            433222 222222222   378999999999994

>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=99.51  E-value=3.1e-14  Score=105.69  Aligned_cols=101  Identities=19%  Similarity=0.130  Sum_probs=66.2

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++|+|+|+++
T Consensus        38 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~  112 (199)
T 2p5s_A           38 AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVD-----GERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTC  112 (199)
T ss_dssp             TSSHHHHHHHHHHCCCC----------CEEEEEEET-----TEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEEC-----CEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCC
Confidence            689999986653     3333333333333344444     446889999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ........ ++..+..   .++|+++|+||+|+..
T Consensus       113 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~  147 (199)
T 2p5s_A          113 EKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRD  147 (199)
T ss_dssp             HHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHH
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccc
Confidence            44322222 2222222   4789999999999974

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.51  E-value=1.7e-14  Score=104.48  Aligned_cols=103  Identities=14%  Similarity=0.001  Sum_probs=72.8

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+..    +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        16 ~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   91 (178)
T 2hxs_A           16 ASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPG----NLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITN   91 (178)
T ss_dssp             TSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETT----TEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCC----CCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCC
Confidence            689999986553     45566666655555555541    135899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH-----cCCC-cEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL-----EKIQ-PILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~-----~~~p-~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+..     .+.| +++|+||+|+...
T Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~  130 (178)
T 2hxs_A           92 YQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM  130 (178)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccc
Confidence            4332222 22222222     2567 6899999999753

>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=99.50  E-value=5.4e-15  Score=110.89  Aligned_cols=102  Identities=18%  Similarity=0.099  Sum_probs=71.1

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..++++.+.....+.+.     +..+++.||||||+++|...+..+++.+|++++|+|+++
T Consensus        36 ~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~  110 (201)
T 2ew1_A           36 GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIN-----GEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITC  110 (201)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            6899999866542     333344444333444444     446899999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+.   ..++|+++|+||+|+...
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~  146 (201)
T 2ew1_A          111 EESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER  146 (201)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc
Confidence            433221 12222222   246889999999999743

>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=99.50  E-value=5.2e-15  Score=106.94  Aligned_cols=102  Identities=17%  Similarity=0.117  Sum_probs=71.3

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..++++++.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        24 ~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   98 (179)
T 2y8e_A           24 SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-----DRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN   98 (179)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEEC-----CeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            6899999866542     334444444444444444     446799999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... ..++..+.   ..++|+++|+||+|+...
T Consensus        99 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  134 (179)
T 2y8e_A           99 TNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK  134 (179)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccccc
Confidence            332211 12222222   247899999999999754

>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=99.50  E-value=1.6e-14  Score=104.47  Aligned_cols=98  Identities=16%  Similarity=0.108  Sum_probs=66.6

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH------HHHHHHHH--hcCEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS------SEVSTAVR--LCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~------~~~~~~l~--~~d~~   68 (161)
                      ++|||+++..+..     +..+|+|++.....+.+.       +.++.+|||||++++.      .....+++  .+|++
T Consensus        13 gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (165)
T 2wji_A           13 NVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYN-------GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   85 (165)
T ss_dssp             TSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEET-------TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             CCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEEC-------CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEE
Confidence            6899999765532     334566766655555554       5789999999998763      44566665  79999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|++..  .....++..+...++|+++|+||+|+...
T Consensus        86 i~v~D~~~~--~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  123 (165)
T 2wji_A           86 VNIVDATAL--ERNLYLTLQLMEMGANLLLALNKMDLAKS  123 (165)
T ss_dssp             EEEEETTCH--HHHHHHHHHHHHTTCCEEEEEECHHHHHH
T ss_pred             EEEecCCch--hHhHHHHHHHHhcCCCEEEEEEchHhccc
Confidence            999999752  22233344445568999999999999754

>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=99.50  E-value=8.2e-15  Score=104.45  Aligned_cols=101  Identities=19%  Similarity=0.136  Sum_probs=67.7

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++ ......+.+.     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        13 ~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~-----~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (167)
T 1kao_A           13 GVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVD-----SSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVN   86 (167)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEET-----TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCcccCCCCcc-eeEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCC
Confidence            689999976654322     11111 1112223333     446789999999999999999999999999999999986


Q ss_pred             CCChhHH-H----HHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-V----ALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~----~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .    +.......++|+++|+||+|+...
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  123 (167)
T 1kao_A           87 QQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE  123 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccccc
Confidence            4322221 1    222222247999999999999653

>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=99.50  E-value=7.9e-15  Score=104.98  Aligned_cols=102  Identities=18%  Similarity=0.033  Sum_probs=70.2

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     ...+.++.......+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        16 ~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (170)
T 1r2q_A           16 AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD-----DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITN   90 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-----CEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCC
Confidence            6899999866543     223333333323333333     447899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+..   .++|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~  126 (170)
T 1r2q_A           91 EESFARAKNWVKELQRQASPNIVIALSGNKADLANK  126 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccc
Confidence            4332222 22222222   37888999999999653

>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=99.50  E-value=4.7e-15  Score=106.14  Aligned_cols=102  Identities=18%  Similarity=0.128  Sum_probs=70.5

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..++++.+.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        15 ~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   89 (168)
T 1z2a_A           15 AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVN-----DEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD   89 (168)
T ss_dssp             TSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEET-----TEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEEC-----CEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcC
Confidence            68999998665432     23333333333344443     446799999999999998889999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+..  .++|+++|+||+|+...
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~  124 (168)
T 1z2a_A           90 RESFEAISSWREKVVAEVGDIPTALVQNKIDLLDD  124 (168)
T ss_dssp             HHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCcc
Confidence            4322221 22222222  48999999999999753

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.50  E-value=9.7e-15  Score=121.66  Aligned_cols=100  Identities=22%  Similarity=0.210  Sum_probs=75.3

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc----------hhhHHH-HHHHHHh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH----------VDFSSE-VSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~----------~~~~~~-~~~~l~~   64 (161)
                      |+|||++++.+..+      ..+|+|++.....+.+.       +..+.||||||+          ++|... ...+++.
T Consensus       185 nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~-------~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~  257 (436)
T 2hjg_A          185 NVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYN-------QQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR  257 (436)
T ss_dssp             TSSHHHHHHHHHTSTTEEEC---------CCEEEEET-------TEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEEC-------CeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHh
Confidence            78999998666433      35788888777777776       568999999998          556554 3468999


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|++++|+|++++.+.++..++..+...++|+++|+||+|+...
T Consensus       258 ad~~llv~D~~~~~s~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~  301 (436)
T 2hjg_A          258 SEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDK  301 (436)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCC
T ss_pred             CCEEEEEEcCCcCCcHHHHHHHHHHHHcCCcEEEEEECccCCCc
Confidence            99999999999999988888888777789999999999999753

>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=99.50  E-value=6e-15  Score=107.60  Aligned_cols=101  Identities=11%  Similarity=0.055  Sum_probs=52.1

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..++++.+.....+.+.     +..+++.||||||++++...+..+++.+|++++|+|+++
T Consensus        18 ~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (183)
T 2fu5_C           18 GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELD-----GKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN   92 (183)
T ss_dssp             CC----------------CHHHHHCEEEEEEEEEET-----TEEEEEEEEEC---------CCTTTTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEEC-----CEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcC
Confidence            68999999877533     33444444333444444     446899999999999999888999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... .++..+..   .++|+++|+||+|+..
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (183)
T 2fu5_C           93 EKSFDNIRNWIRNIEEHASADVEKMILGNKCDVND  127 (183)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCc
Confidence            4332222 22222322   3789999999999964

>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=99.50  E-value=2.1e-15  Score=109.46  Aligned_cols=101  Identities=15%  Similarity=0.107  Sum_probs=63.1

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||++++.+...      ..++++.+.....+...     +..+++.+|||||++++...+..+++.+|++++|+|++
T Consensus        20 ~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~   94 (180)
T 2g6b_A           20 GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVD-----GVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVT   94 (180)
T ss_dssp             TSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEET-----TEEEEEEEEECCCC--------CCGGGCSEEEEEEETT
T ss_pred             CCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECC
Confidence            68999998666432      23344444333333333     44679999999999999999999999999999999998


Q ss_pred             CCCChhH-HHHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          76 EGICAQT-QVALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      +..+... ..++..+..   .++|+++|+||+|+..
T Consensus        95 ~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  130 (180)
T 2g6b_A           95 NKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH  130 (180)
T ss_dssp             CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTS
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCc
Confidence            6433222 222222222   5789999999999975

>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=99.49  E-value=7.6e-15  Score=105.45  Aligned_cols=102  Identities=16%  Similarity=0.033  Sum_probs=60.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH-HHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS-EVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~-~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||++++.+.     .......+.+.....+.+.     +..+++.+|||||++++.. ....+++.+|++++|+|++
T Consensus        12 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~   86 (169)
T 3q85_A           12 GVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVD-----KEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVT   86 (169)
T ss_dssp             TSSHHHHHHHHHCC------------CEEEEEEEET-----TEEEEEEEECCCCC--------CHHHHHCSEEEEEEETT
T ss_pred             CCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEEC-----CeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECC
Confidence            689999986652     2223333444433444444     5578999999999999876 6777789999999999998


Q ss_pred             CCCChhH-HHHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          76 EGICAQT-QVALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+... ..++..+..    .++|+++|+||+|+...
T Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  124 (169)
T 3q85_A           87 DRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARS  124 (169)
T ss_dssp             CHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGG
T ss_pred             ChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhc
Confidence            6322211 122222222    37999999999999743

>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=99.49  E-value=3.2e-14  Score=104.64  Aligned_cols=98  Identities=15%  Similarity=0.162  Sum_probs=71.5

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCC----------chhhHHHHHHHHHh
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG----------HVDFSSEVSTAVRL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG----------~~~~~~~~~~~l~~   64 (161)
                      ++|||++++.+..+.       .+|.|.....  +.+        +.++.+|||||          ++.+...+..+++.
T Consensus        33 ~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~--~~~--------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~  102 (195)
T 1svi_A           33 NVGKSSFINSLINRKNLARTSSKPGKTQTLNF--YII--------NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITT  102 (195)
T ss_dssp             TSSHHHHHHHHHTC-------------CCEEE--EEE--------TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCCccccCCCCCceeeEEE--EEE--------CCcEEEEECCCCCccccCHHHHHHHHHHHHHHHhh
Confidence            689999986664322       2333333221  111        22799999999          77788888889988


Q ss_pred             c---CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 C---DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ~---d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +   |++++|+|++.+.......++.++...++|+++|+||+|+....
T Consensus       103 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~  150 (195)
T 1svi_A          103 REELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKG  150 (195)
T ss_dssp             CTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGG
T ss_pred             hhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECcccCChH
Confidence            8   99999999998888777777777777899999999999997543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.49  E-value=2.9e-14  Score=118.72  Aligned_cols=100  Identities=22%  Similarity=0.169  Sum_probs=76.6

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-------HHHHHHHHhcCEE
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-------SEVSTAVRLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-------~~~~~~l~~~d~~   68 (161)
                      ++|||++++.+.      .+..+|+|++.....+.+..      ..++.+|||||+++|.       ..+..+++.+|++
T Consensus        44 ~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~------~~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~v  117 (423)
T 3qq5_A           44 NVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHP------IGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCG  117 (423)
T ss_dssp             STTTTTTTTSSCC-------------CCCCEEEEEETT------TEEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEE
T ss_pred             CCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECC------CCeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEE
Confidence            799999998874      35578889888888887762      2489999999998653       3467889999999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      |+|+|+  +...++..++..+...++|+++|+||+|+....
T Consensus       118 llVvD~--~~~~~~~~~l~~l~~~~~piIvV~NK~Dl~~~~  156 (423)
T 3qq5_A          118 ILVTDS--APTPYEDDVVNLFKEMEIPFVVVVNKIDVLGEK  156 (423)
T ss_dssp             EEECSS--SCCHHHHHHHHHHHHTTCCEEEECCCCTTTTCC
T ss_pred             EEEEeC--CChHHHHHHHHHHHhcCCCEEEEEeCcCCCCcc
Confidence            999998  667778888888888899999999999997644

>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=99.49  E-value=6.6e-15  Score=106.65  Aligned_cols=104  Identities=15%  Similarity=0.073  Sum_probs=59.8

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+..    +....+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        18 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   93 (182)
T 1ky3_A           18 GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDG----DKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTN   93 (182)
T ss_dssp             TSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSS----SCCEEEEEECCC----------CCSTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcC----CcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCC
Confidence            689999986553     33344444443333333321    346789999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH-------cCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQV-ALKQAWL-------EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~-------~~~p~ilv~NK~Dl~~~~  109 (161)
                      ........ ++..+..       .++|+++|+||+|+....
T Consensus        94 ~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  134 (182)
T 1ky3_A           94 ASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK  134 (182)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG
T ss_pred             hHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccccc
Confidence            43322221 1122211       578999999999996443

>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=99.49  E-value=6.3e-15  Score=108.69  Aligned_cols=102  Identities=16%  Similarity=0.091  Sum_probs=69.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.++.+.....+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        31 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  105 (191)
T 2a5j_A           31 GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNID-----GKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR  105 (191)
T ss_dssp             TSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEET-----TEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-----CEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCC
Confidence            689999985553     3344444444333444444     446899999999999998889999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|+++|+||+|+...
T Consensus       106 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~  141 (191)
T 2a5j_A          106 RETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR  141 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCc
Confidence            432222 222223322   37899999999999653

>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=99.49  E-value=3.8e-15  Score=106.79  Aligned_cols=102  Identities=19%  Similarity=0.056  Sum_probs=70.5

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+........+.+.     +...++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        16 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (170)
T 1z0j_A           16 GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQ-----NELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITK   90 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEEC-----CeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcC
Confidence            689999986654332     2333322222333343     446899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ....... .++..+..   .++|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~  126 (170)
T 1z0j_A           91 EETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV  126 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccc
Confidence            5433332 22233332   46788999999999754

>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=99.49  E-value=4.4e-15  Score=115.90  Aligned_cols=132  Identities=14%  Similarity=0.149  Sum_probs=87.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH----------HHHHHH--Hh
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS----------EVSTAV--RL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~----------~~~~~l--~~   64 (161)
                      |+|||++++.+...     ..+|+|++.....+.+.       +..+.+|||||+.++..          .+..++  +.
T Consensus        11 n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~-------~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~   83 (256)
T 3iby_A           11 NCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLG-------EHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLE   83 (256)
T ss_dssp             TSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEET-------TEEEEEEECCCCSSCC------CHHHHHHHHHHHHSC
T ss_pred             CCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEEC-------CeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCC
Confidence            79999998776544     34688887776767666       56999999999987653          455666  78


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhc-CChHHHHHhHHHHHHHHHhhhhhhchhhhhhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMK-LSPLDIYVHLSQLLEQVNAVMGELFASQVMDE  143 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  143 (161)
                      +|++++|+|++.  ......+..++...++|+++|+||+|+...... .........+.  +..+++++....+.+.+.+
T Consensus        84 ~d~vi~VvDas~--~~~~~~l~~~l~~~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~lg--~~vi~~SA~~g~gi~el~~  159 (256)
T 3iby_A           84 YDCIINVIDACH--LERHLYLTSQLFELGKPVVVALNMMDIAEHRGISIDTEKLESLLG--CSVIPIQAHKNIGIPALQQ  159 (256)
T ss_dssp             CSEEEEEEEGGG--HHHHHHHHHHHTTSCSCEEEEEECHHHHHHTTCEECHHHHHHHHC--SCEEECBGGGTBSHHHHHH
T ss_pred             CCEEEEEeeCCC--chhHHHHHHHHHHcCCCEEEEEEChhcCCcCCcHHHHHHHHHHcC--CCEEEEECCCCCCHHHHHH
Confidence            999999999985  233344555666678999999999999765421 12111111111  1234556666666666555


Q ss_pred             h
Q psy2609         144 T  144 (161)
Q Consensus       144 ~  144 (161)
                      .
T Consensus       160 ~  160 (256)
T 3iby_A          160 S  160 (256)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.49  E-value=1.3e-14  Score=105.93  Aligned_cols=102  Identities=20%  Similarity=0.100  Sum_probs=71.0

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     ++.+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        20 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   94 (186)
T 2bme_A           20 GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVG-----GKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   94 (186)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcC
Confidence            689999986554     3334444444333334443     445799999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+   ...++|+++|+||+|+...
T Consensus        95 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  130 (186)
T 2bme_A           95 RETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD  130 (186)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccc
Confidence            43322222 22222   2357899999999999643

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.49  E-value=2.5e-14  Score=105.98  Aligned_cols=101  Identities=13%  Similarity=0.031  Sum_probs=54.3

Q ss_pred             ccccccccCCchhH-------HHcCCccccceEEEEeecCCCCCC--ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMDSRKDE-------QERGITMKSSSISLYYKDNKDTPE--EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-------~~~giti~~~~~~~~~~~~~~~~~--~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVv   72 (161)
                      ++|||++++.+...       ..+.+..+.....+.+.     +.  .+.+.+|||||++++...+..+++.+|++++|+
T Consensus        30 ~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~  104 (208)
T 2yc2_C           30 TVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIP-----DTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVF  104 (208)
T ss_dssp             -------------------------------CEEEECT-----TSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEE
T ss_pred             CCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEEC-----CcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEE
Confidence            68999999877544       22222223333344443     44  679999999999999999999999999999999


Q ss_pred             eCCCCCChhHH-HHHHHHHH------cCCCcEEEEECCcchh
Q psy2609          73 DCVEGICAQTQ-VALKQAWL------EKIQPILVLNKIDRLI  107 (161)
Q Consensus        73 d~~~~~~~~~~-~~~~~~~~------~~~p~ilv~NK~Dl~~  107 (161)
                      |+++..+.... .++..+..      .++|+++|+||+|+..
T Consensus       105 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  146 (208)
T 2yc2_C          105 DVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPP  146 (208)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC----
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccch
Confidence            99865432222 22233332      4789999999999975

>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=99.48  E-value=4e-15  Score=111.00  Aligned_cols=100  Identities=18%  Similarity=0.085  Sum_probs=70.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+++.||||||++++...+..+++.+|++++|+|+++
T Consensus        30 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  104 (213)
T 3cph_A           30 GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN-----GKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTD  104 (213)
T ss_dssp             TSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEET-----TEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCC
Confidence            689999986554     3334455555444445554     445899999999999999889999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcch
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~  106 (161)
                      ...... ..++..+..   .++|+++|+||+|+.
T Consensus       105 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  138 (213)
T 3cph_A          105 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME  138 (213)
T ss_dssp             HHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc
Confidence            432222 222222222   378999999999994

>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=99.48  E-value=1.1e-14  Score=104.60  Aligned_cols=102  Identities=19%  Similarity=0.072  Sum_probs=64.5

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        16 ~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (170)
T 1z08_A           16 CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIG-----GKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITD   90 (170)
T ss_dssp             TSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESS-----SCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEEC-----CEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcC
Confidence            689999985554     3333444443333334443     557899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+.   ..++|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  126 (170)
T 1z08_A           91 EDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE  126 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccc
Confidence            43322222 222222   257899999999999753

>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=99.48  E-value=4.4e-14  Score=102.02  Aligned_cols=102  Identities=16%  Similarity=0.109  Sum_probs=70.0

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.......+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        25 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   99 (179)
T 1z0f_A           25 GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-----GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   99 (179)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEET-----TEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-----CeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcC
Confidence            689999986664332     2223222222333333     446799999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ........ ++..+.   ..++|+++|+||+|+...
T Consensus       100 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  135 (179)
T 1z0f_A          100 RSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ  135 (179)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccc
Confidence            53322222 222222   257899999999999643

>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=99.48  E-value=1.3e-15  Score=113.22  Aligned_cols=100  Identities=17%  Similarity=0.078  Sum_probs=69.1

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..++++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++|+|+|+++
T Consensus        18 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (207)
T 1vg8_A           18 GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVD-----DRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTA   92 (207)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESS-----SCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEEC-----CEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCC
Confidence            68999998666433     23344444333333333     456899999999999998888889999999999999986


Q ss_pred             CCChhHHH-HHHHHH-H------cCCCcEEEEECCcch
Q psy2609          77 GICAQTQV-ALKQAW-L------EKIQPILVLNKIDRL  106 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~-~------~~~p~ilv~NK~Dl~  106 (161)
                      ........ +...+. .      .++|+++|+||+|+.
T Consensus        93 ~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  130 (207)
T 1vg8_A           93 PNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE  130 (207)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS
T ss_pred             HHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc
Confidence            43322221 111111 1      478999999999996

>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=99.48  E-value=3.1e-14  Score=105.66  Aligned_cols=101  Identities=16%  Similarity=0.116  Sum_probs=69.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.......+.+.     +..+++.||||||++++...+..+++.+|++|+|+|+++
T Consensus        18 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   92 (203)
T 1zbd_A           18 SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRN-----DKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITN   92 (203)
T ss_dssp             TSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEEC-----CeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcC
Confidence            689999986554322     2333322222333333     446899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ....... .++..+..   .++|+++|+||+|+..
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (203)
T 1zbd_A           93 EESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMED  127 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCc
Confidence            4332222 22233332   4789999999999965

>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=99.48  E-value=9.6e-15  Score=106.48  Aligned_cols=100  Identities=20%  Similarity=0.165  Sum_probs=67.6

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+.++... ...+.+.     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        28 ~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  101 (183)
T 3kkq_A           28 GVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEID-----NQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTD  101 (183)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEET-----TEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeC-----CcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            68999998766532     122222211 2222233     446778899999999999999999999999999999986


Q ss_pred             CCChhH-----HHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQT-----QVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-----~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+...     ..+.......++|+++|+||+|+..
T Consensus       102 ~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  137 (183)
T 3kkq_A          102 KASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH  137 (183)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCST
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchh
Confidence            432211     2222222336789999999999865

>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=99.48  E-value=1e-14  Score=107.34  Aligned_cols=99  Identities=13%  Similarity=0.068  Sum_probs=69.7

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....    ....|+......+.+.       +.++.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        31 ~~GKSsli~~l~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~  103 (190)
T 2h57_A           31 NSGKTTIINKLKPSNAQSQNILPTIGFSIEKFKSS-------SLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDR  103 (190)
T ss_dssp             TSSHHHHHHHTSCGGGCCSSCCCCSSEEEEEEECS-------SCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHhcCCCCCCCcCCccceeEEEEEEC-------CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence            689999987765433    2334444333334333       57999999999999999999999999999999999864


Q ss_pred             CChhH-HHHH-HHHHH-----cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVAL-KQAWL-----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~-~~~~~-----~~~p~ilv~NK~Dl~~  107 (161)
                      .+... ...+ .....     .++|+++|+||+|+..
T Consensus       104 ~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  140 (190)
T 2h57_A          104 LRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD  140 (190)
T ss_dssp             HHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc
Confidence            32222 1222 22222     4789999999999965

>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=99.48  E-value=9.4e-15  Score=105.00  Aligned_cols=100  Identities=14%  Similarity=-0.012  Sum_probs=70.1

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       ..++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        17 ~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s   89 (171)
T 1upt_A           17 GAGKTTILYRLQVGEVVTTIPTIGFNVETVTYK-------NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDR   89 (171)
T ss_dssp             TSSHHHHHHHHHHSSCCCCCCCSSEEEEEEEET-------TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTT
T ss_pred             CCCHHHHHHHHhcCCCCCcCCcCccceEEEEEC-------CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHH
Confidence            689999987764322  1222333333344444       7899999999999999889999999999999999987644


Q ss_pred             hhH--HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          80 AQT--QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~--~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ...  ..+...+..   .++|+++|+||+|+...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (171)
T 1upt_A           90 IGISKSELVAMLEEEELRKAILVVFANKQDMEQA  123 (171)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCC
Confidence            322  222222222   57899999999999753

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.48  E-value=9.8e-14  Score=101.62  Aligned_cols=97  Identities=18%  Similarity=0.166  Sum_probs=72.4

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCC----------chhhHHHHHHHHHhc
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG----------HVDFSSEVSTAVRLC   65 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG----------~~~~~~~~~~~l~~~   65 (161)
                      ++|||++++.+....      ..|.|..   ..+...       +.++.+|||||          ++.+...+..+++.+
T Consensus        33 ~~GKSsli~~l~~~~~~~~~~~~~~t~~---~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~  102 (195)
T 3pqc_A           33 NVGKSSLLNALFNRKIAFVSKTPGKTRS---INFYLV-------NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNR  102 (195)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSCCCCCC---EEEEEE-------TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHcCccccccCCCCCccC---eEEEEE-------CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcC
Confidence            689999987665432      1222322   122222       34788999999          667778888888887


Q ss_pred             ---CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          66 ---DGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        66 ---d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                         |++++|+|++.+.......++.++...++|+++|+||+|+...
T Consensus       103 ~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~  148 (195)
T 3pqc_A          103 WSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIPFTIVLTKMDKVKM  148 (195)
T ss_dssp             TTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCG
T ss_pred             cCceEEEEEecCCCCCCHHHHHHHHHHHHcCCCEEEEEEChhcCCh
Confidence               8999999999887777777777787789999999999999754

>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=99.48  E-value=4.8e-14  Score=103.78  Aligned_cols=100  Identities=17%  Similarity=0.057  Sum_probs=69.5

Q ss_pred             ccccccccCCchhHHH---cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE---RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~---~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||++++.+....-   ..-|+......+.+       ..+++.+|||||++++...+..+++.+|++++|+|+++..
T Consensus        32 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~-------~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~  104 (188)
T 1zd9_A           32 YSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK-------GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE  104 (188)
T ss_dssp             TSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEE-------TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGG
T ss_pred             CCCHHHHHHHHHcCCCCCccCCCCceeEEEEEe-------CCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHH
Confidence            6899999876653321   12233333333333       3789999999999999999999999999999999998643


Q ss_pred             ChhHH-HHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          79 CAQTQ-VAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        79 ~~~~~-~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..... ..+ ....   ..++|+++|+||+|+...
T Consensus       105 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (188)
T 1zd9_A          105 KIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  139 (188)
T ss_dssp             GHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC
Confidence            32221 222 2222   257999999999999753

>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=99.47  E-value=2.5e-14  Score=102.02  Aligned_cols=102  Identities=20%  Similarity=0.060  Sum_probs=65.2

Q ss_pred             ccccccccCCchhHHHc---CCccc-cceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER---GITMK-SSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~---giti~-~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-.   .-|.. .....+.+.     ++.+++.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        14 ~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   88 (168)
T 1u8z_A           14 GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLD-----GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM   88 (168)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEET-----TEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHhCccCCCCCCCcceEEEEEEEEC-----CEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCH
Confidence            68999998766543211   11111 111222333     4467899999999999999999999999999999999854


Q ss_pred             CChhHH-HHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQ-VALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.... .++..+.    ..++|+++|+||+|+...
T Consensus        89 ~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  124 (168)
T 1u8z_A           89 ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK  124 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccccc
Confidence            322221 1112222    237999999999999754

>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=99.47  E-value=2.8e-14  Score=107.56  Aligned_cols=102  Identities=14%  Similarity=0.100  Sum_probs=70.1

Q ss_pred             ccccccccCCchhHHHcC---Ccc--ccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQERG---ITM--KSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~g---iti--~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.......   -|+  ......+...     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        25 ~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   99 (221)
T 3gj0_A           25 GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-----RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTS   99 (221)
T ss_dssp             TSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEET-----TEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCC
Confidence            689999999965443221   122  2222222222     447899999999999999889999999999999999986


Q ss_pred             CCChhHHHHH-HHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ..+..  .++|+++|+||+|+...
T Consensus       100 ~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  134 (221)
T 3gj0_A          100 RVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDR  134 (221)
T ss_dssp             HHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEECCccccc
Confidence            4433222222 22222  38899999999999653

>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=99.47  E-value=2.4e-14  Score=105.72  Aligned_cols=101  Identities=19%  Similarity=0.010  Sum_probs=69.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+........+.+.     +..+++.||||||++++...+..+++.+|++++|+|+++
T Consensus        33 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~  107 (192)
T 2fg5_A           33 GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCG-----NELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITK  107 (192)
T ss_dssp             TSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECS-----SSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeC-----CEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCC
Confidence            689999987764332     2222222222223333     457899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ........ ++..+..   .++|+++|+||+|+..
T Consensus       108 ~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~  142 (192)
T 2fg5_A          108 QDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSD  142 (192)
T ss_dssp             THHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccc
Confidence            54333322 2222322   3789999999999964

>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=99.47  E-value=9.8e-16  Score=122.14  Aligned_cols=98  Identities=17%  Similarity=0.161  Sum_probs=71.9

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-hh--------HHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-DF--------SSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-~~--------~~~~~~~l~~~d   66 (161)
                      |||||++++.+..+.      .++.|.......+.+.       ..+++||||||++ +.        ...+..+++.+|
T Consensus        18 nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~-------~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D   90 (301)
T 1ega_A           18 NVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEG-------AYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVE   90 (301)
T ss_dssp             SSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEET-------TEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEE
T ss_pred             CCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEEC-------CeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCC
Confidence            799999988776543      2334433222222232       6799999999997 32        223456677899


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++++|+|++. +...+..+++.+...+.|+++|+||+|+..
T Consensus        91 ~vl~Vvd~~~-~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           91 LVIFVVEGTR-WTPDDEMVLNKLREGKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             EEEEEEETTC-CCHHHHHHHHHHHSSSSCEEEEEESTTTCC
T ss_pred             EEEEEEeCCC-CCHHHHHHHHHHHhcCCCEEEEEECcccCc
Confidence            9999999987 888888887777767899999999999975

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.47  E-value=2e-14  Score=103.01  Aligned_cols=102  Identities=16%  Similarity=0.041  Sum_probs=67.2

Q ss_pred             ccccccccCCchhHHH---cCCccccceEE-EEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE---RGITMKSSSIS-LYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~---~giti~~~~~~-~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-   ...|+...... +...     +..+.+.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        13 ~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   87 (172)
T 2erx_A           13 GVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCD-----KSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSR   87 (172)
T ss_dssp             TSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEET-----TEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCH
Confidence            6899999866643221   11122211111 1122     4467899999999999999999999999999999999853


Q ss_pred             CChhH-HHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          78 ICAQT-QVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      ..... ..++..+..     .++|+++|+||+|+...
T Consensus        88 ~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~  124 (172)
T 2erx_A           88 QSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPS  124 (172)
T ss_dssp             HHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccc
Confidence            32211 222222222     37899999999999754

>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=99.47  E-value=4.7e-14  Score=102.89  Aligned_cols=99  Identities=15%  Similarity=0.103  Sum_probs=68.9

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh----H----HHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF----S----SEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~----~----~~~~~~l~~~d~   67 (161)
                      ++|||++++.+..+.      .+|.|.+.....+.+.       +..+.+|||||++++    .    .....+++.+|+
T Consensus        14 g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~   86 (172)
T 2gj8_A           14 NAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHID-------GMPLHIIDTAGLREASDEVERIGIERAWQEIEQADR   86 (172)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEET-------TEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSE
T ss_pred             CCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEEC-------CeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCE
Confidence            689999987765432      2455655444455554       567999999998652    1    123457899999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|+++..+.....++..+..   .++|+++|+||+|+..
T Consensus        87 ~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           87 VLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITG  129 (172)
T ss_dssp             EEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHhcccCCCEEEEEECccCCc
Confidence            999999987665544444444433   2689999999999964

>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=99.47  E-value=7.4e-15  Score=115.48  Aligned_cols=99  Identities=17%  Similarity=0.130  Sum_probs=72.4

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH----------HHHHHHH--Hh
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS----------SEVSTAV--RL   64 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~----------~~~~~~l--~~   64 (161)
                      |||||++++.+...     ..+|+|++.....+.+.       +..+.+|||||+.++.          ..+..++  +.
T Consensus        13 n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~-------~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~   85 (274)
T 3i8s_A           13 NSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTT-------DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGD   85 (274)
T ss_dssp             TSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECS-------SCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeC-------CCceEEEECcCCCccccccccCCHHHHHHHHHHhhcC
Confidence            79999998777543     34588887666666655       5689999999987754          2233333  68


Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|++++|+|++.  ......+..++...++|+++|+||+|+....
T Consensus        86 ~d~ii~VvD~~~--~~~~~~~~~~l~~~~~p~ivv~NK~Dl~~~~  128 (274)
T 3i8s_A           86 ADLLINVVDASN--LERNLYLTLQLLELGIPCIVALNMLDIAEKQ  128 (274)
T ss_dssp             CSEEEEEEEGGG--HHHHHHHHHHHHHHTCCEEEEEECHHHHHHT
T ss_pred             CCEEEEEecCCC--hHHHHHHHHHHHhcCCCEEEEEECccchhhh
Confidence            999999999985  2233444555666799999999999997643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.47  E-value=5.7e-15  Score=109.71  Aligned_cols=102  Identities=18%  Similarity=0.112  Sum_probs=70.0

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++++|+|+++
T Consensus        43 ~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  117 (199)
T 3l0i_B           43 GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD-----GKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD  117 (199)
T ss_dssp             TSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEET-----TEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCC
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEEC-----CEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCC
Confidence            689999987664     4455566655555555555     446889999999999998888899999999999999987


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+..   .++|+++|+||+|+...
T Consensus       118 ~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~  153 (199)
T 3l0i_B          118 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK  153 (199)
T ss_dssp             SHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCcc
Confidence            54333322 2222222   37899999999999754

>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=99.20  E-value=4.3e-15  Score=110.65  Aligned_cols=101  Identities=14%  Similarity=0.042  Sum_probs=68.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+.+ .+.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        40 ~~GKSsli~~l~~~~~~~~~~~t~-~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~  113 (204)
T 3th5_A           40 AVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVD-----GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVS  113 (204)
Confidence            68999999665432     22211 11111222222     446788899999999999999999999999999999986


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .+...+...  ++|+++|+||+|+...
T Consensus       114 ~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~  149 (204)
T 3th5_A          114 PASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD  149 (204)
Confidence            5443332  222333322  7899999999999753

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.46  E-value=4.1e-14  Score=112.88  Aligned_cols=100  Identities=18%  Similarity=0.137  Sum_probs=74.6

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh-----HHHHHHHHHhcCEEEE
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-----SSEVSTAVRLCDGTII   70 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-----~~~~~~~l~~~d~~il   70 (161)
                      ++|||+++..+-      ....+|.|++.....+.+.     + .+++.+|||||+++|     ...+..+++.+|++|+
T Consensus        13 ~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~-----~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~   86 (307)
T 3r7w_A           13 GSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFL-----G-NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIH   86 (307)
T ss_dssp             TSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEET-----T-TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEE
T ss_pred             CCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeC-----C-ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEE
Confidence            689999875532      2246788888777666653     2 789999999999998     5668888999999999


Q ss_pred             EEeCCCCCChhHHHHH-HHH---H--HcCCCcEEEEECCcchh
Q psy2609          71 VVDCVEGICAQTQVAL-KQA---W--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        71 Vvd~~~~~~~~~~~~~-~~~---~--~~~~p~ilv~NK~Dl~~  107 (161)
                      |+|+++..+......| .++   .  ..++|+++|+||+|+..
T Consensus        87 V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~  129 (307)
T 3r7w_A           87 VFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ  129 (307)
T ss_dssp             EEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC
T ss_pred             EEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccc
Confidence            9999976554443322 112   1  13799999999999975

>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=99.46  E-value=6.4e-15  Score=105.55  Aligned_cols=99  Identities=17%  Similarity=-0.006  Sum_probs=52.3

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||++++.+....      ..|.+..   ..+.+.     +..+.+.+|||||++++......+++.+|++++|+|++
T Consensus        12 ~~GKSsli~~l~~~~~~~~~~~~~~~~~---~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   83 (166)
T 3q72_A           12 GVGKSALARIFGGVEDGPEAEAAGHTYD---RSIVVD-----GEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVT   83 (166)
T ss_dssp             TSSHHHHHHHHCCC----------CEEE---EEEEET-----TEEEEEEEEECC---------------CCEEEEEEETT
T ss_pred             CCCHHHHHHHHcCccccCCCCccccceE---EEEEEC-----CEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECC
Confidence            689999986653211      1222221   223333     55789999999999999999999999999999999998


Q ss_pred             CCCChhHH-HHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQ-VALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.... .++..+..    .++|+++|+||+|+...
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  121 (166)
T 3q72_A           84 DKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS  121 (166)
T ss_dssp             CHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSS
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccc
Confidence            54322221 22222222    47899999999999753

>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=99.46  E-value=9.4e-15  Score=107.88  Aligned_cols=101  Identities=13%  Similarity=0.078  Sum_probs=68.7

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        33 ~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  106 (194)
T 3reg_A           33 AVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYK-----NEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNN  106 (194)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEET-----TEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCccCCeeeeee-EEEEEEC-----CEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCC
Confidence            689999987665432     22222111 1122223     456789999999999999999999999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .+...+..  .++|+++|+||+|+...
T Consensus       107 ~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  142 (194)
T 3reg_A          107 RTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKD  142 (194)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCT
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccC
Confidence            5433331  22223332  37899999999999753

>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=99.46  E-value=1.4e-14  Score=104.84  Aligned_cols=101  Identities=13%  Similarity=0.033  Sum_probs=67.6

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        19 ~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (181)
T 2fn4_A           19 GVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSVD-----GIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIND   92 (181)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCTTCCEEE-EEEEEET-----TEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCcCccccCCCcCceE-EEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCC
Confidence            689999986664332     11221111 1223333     445789999999999998889999999999999999986


Q ss_pred             CCChhHH-HHH----HHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VAL----KQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~----~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ....... .++    ......++|+++|+||+|+...
T Consensus        93 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  129 (181)
T 2fn4_A           93 RQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQ  129 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            4322211 111    2222347899999999999753

>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=99.46  E-value=6.5e-14  Score=102.28  Aligned_cols=69  Identities=20%  Similarity=0.144  Sum_probs=54.1

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhH-HHHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQT-QVALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.+.+|||||++++...+..+++.+|++++|+|++...+... ..++..+..    .++|+++|+||+|+...
T Consensus        69 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  142 (195)
T 3bc1_A           69 RIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQ  142 (195)
T ss_dssp             EEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGG
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            5799999999999999999999999999999999986443322 222222222    57899999999999753

>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=99.46  E-value=3.3e-14  Score=119.04  Aligned_cols=100  Identities=24%  Similarity=0.267  Sum_probs=74.2

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCC--------chhhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG--------HVDFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG--------~~~~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+.      .+..+|+|.+.....+.+.       +..+.+|||||        ++++...+..+++.+|+
T Consensus        33 nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~~-------~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~  105 (456)
T 4dcu_A           33 NVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWL-------NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADV  105 (456)
T ss_dssp             SSSHHHHHHHHEEEEEC-----------CEEEECTTC-------SSCCEEECCCC------CCHHHHHHHHHHHHHHCSE
T ss_pred             CCcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEEC-------CceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCE
Confidence            789999986654      3345678877665555544       67899999999        77888999999999999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|+|+..++...+.+++..+...++|+++|+||+|+...
T Consensus       106 il~VvD~~~~~~~~d~~l~~~l~~~~~pvilV~NK~D~~~~  146 (456)
T 4dcu_A          106 IIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNTEM  146 (456)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHTTCCSCEEEEEECC-----
T ss_pred             EEEEEeCCCCCChHHHHHHHHHHHcCCCEEEEEECccchhh
Confidence            99999999999998888888888889999999999998643

>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=99.46  E-value=1.2e-14  Score=106.07  Aligned_cols=101  Identities=17%  Similarity=0.086  Sum_probs=65.0

Q ss_pred             ccccccccCCchhHHH----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-    .+.+.......+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        14 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   88 (189)
T 4dsu_A           14 GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVID-----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT   88 (189)
T ss_dssp             TSSHHHHHHHHHHSSCCCCCCTTCCEEEEEEEEET-----TEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCCchheEEEEEEEC-----CcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCH
Confidence            6899999877653321    111111112222333     4467799999999999999999999999999999999864


Q ss_pred             CChhHHH-HHHHHH----HcCCCcEEEEECCcchh
Q psy2609          78 ICAQTQV-ALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .+..... ++..+.    ..++|+++|+||+|+..
T Consensus        89 ~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  123 (189)
T 4dsu_A           89 KSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS  123 (189)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc
Confidence            3222221 222222    24799999999999974

>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=99.45  E-value=2.5e-14  Score=104.98  Aligned_cols=99  Identities=16%  Similarity=0.068  Sum_probs=66.0

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       ++++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        26 ~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s   98 (187)
T 1zj6_A           26 NAGKTTILYQFSMNEVVHTSPTIGSNVEEIVIN-------NTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRER   98 (187)
T ss_dssp             TSSHHHHHHHHHTTSCEEEECCSCSSCEEEEET-------TEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTT
T ss_pred             CCCHHHHHHHHhcCCCCcCcCCCccceEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHH
Confidence            689999986664322  1122333333444444       6899999999999998889999999999999999987643


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+..+.    ..++|+++|+||+|+..
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (187)
T 1zj6_A           99 ISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  131 (187)
T ss_dssp             HHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC
Confidence            3332 2222222    25799999999999975

>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=99.45  E-value=7.2e-15  Score=108.08  Aligned_cols=102  Identities=17%  Similarity=0.124  Sum_probs=69.9

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.......+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        32 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  106 (189)
T 2gf9_A           32 SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRH-----DKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIAN  106 (189)
T ss_dssp             TSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEET-----TEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEEC-----CeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCC
Confidence            689999986654332     2333332222333333     446899999999999998888999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... ..++..+..   .++|+++|+||+|+...
T Consensus       107 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  142 (189)
T 2gf9_A          107 QESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE  142 (189)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccc
Confidence            432222 222333333   37899999999999753

>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=99.45  E-value=1.6e-14  Score=108.03  Aligned_cols=101  Identities=14%  Similarity=0.050  Sum_probs=70.7

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++     +.+..+..+.+ .+.....+.+.     +..+.+.||||||+++|......+++.+|++++|+|+++
T Consensus        40 ~~GKSsLi~~l~~~~~~~~~~~t~-~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  113 (204)
T 4gzl_A           40 AVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVD-----GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVS  113 (204)
T ss_dssp             TSSHHHHHHHHHHSCCCC-CCCCS-EEEEEEEEECC------CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCcCCee-cceeEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCC
Confidence            68999999     55554444333 22222233333     557888899999999999999999999999999999986


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .+...+...  ++|+++|+||+|+...
T Consensus       114 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  149 (204)
T 4gzl_A          114 PASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD  149 (204)
T ss_dssp             HHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccc
Confidence            5443332  233333333  8999999999999754

>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=99.45  E-value=8.3e-14  Score=99.47  Aligned_cols=101  Identities=16%  Similarity=0.061  Sum_probs=67.6

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        13 ~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   86 (167)
T 1c1y_A           13 GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVD-----CQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITA   86 (167)
T ss_dssp             TSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESS-----SCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEEC-----CEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCC
Confidence            689999986664322     22221111 1112222     557889999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+.    ..++|+++|+||+|+...
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  123 (167)
T 1c1y_A           87 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE  123 (167)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHHhhCcCCCcEEEEEECcccccc
Confidence            322111 11222222    248999999999999753

>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=99.45  E-value=9.4e-14  Score=103.32  Aligned_cols=101  Identities=16%  Similarity=0.039  Sum_probs=70.1

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH-HHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS-EVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~-~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++..+.     ....++++.+.....+.+.     +..+++.+|||||++++.. ....+++.+|++|+|+|++
T Consensus        33 ~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~  107 (195)
T 3cbq_A           33 GVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVD-----KEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVT  107 (195)
T ss_dssp             TSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEET-----TEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETT
T ss_pred             CCCHHHHHHHHHhccCCccCCCCcccceEEEEEEEC-----CEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECC
Confidence            689999986662     2234455555444445554     5578999999999988765 6778899999999999998


Q ss_pred             CCCChhH-HHHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          76 EGICAQT-QVALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        76 ~~~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      +..+... ..++..+..    .++|+++|+||+|+..
T Consensus       108 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  144 (195)
T 3cbq_A          108 DRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLAR  144 (195)
T ss_dssp             CHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTT
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccc
Confidence            5332221 122222222    3799999999999965

>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=99.45  E-value=3.5e-14  Score=106.54  Aligned_cols=107  Identities=15%  Similarity=0.093  Sum_probs=68.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCC-----CCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEE
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKD-----TPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIV   71 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~-----~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilV   71 (161)
                      ++|||++++.+...     ..++++.+.....+.+....+     ....+++.||||||+++|...+..+++.+|++|+|
T Consensus        35 ~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV  114 (217)
T 2f7s_A           35 GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLM  114 (217)
T ss_dssp             TSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEE
Confidence            68999998665432     222333332223344441000     00157899999999999999999999999999999


Q ss_pred             EeCCCCCChhHHHHH-HHHHH----cCCCcEEEEECCcchhh
Q psy2609          72 VDCVEGICAQTQVAL-KQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        72 vd~~~~~~~~~~~~~-~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+++.........| ..+..    .++|+++|+||+|+...
T Consensus       115 ~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~  156 (217)
T 2f7s_A          115 FDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ  156 (217)
T ss_dssp             EETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG
T ss_pred             EECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccc
Confidence            999864332222211 21211    46899999999999753

>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=99.44  E-value=3.1e-14  Score=106.10  Aligned_cols=99  Identities=18%  Similarity=0.233  Sum_probs=64.5

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||+++..+....  ...-|+......+.+.       ++++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        35 ~vGKSsLi~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s  107 (198)
T 1f6b_A           35 NAGKTTLLHMLKDDRLGQHVPTLHPTSEELTIA-------GMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHER  107 (198)
T ss_dssp             TSSHHHHHHHHSCC------CCCCCSCEEEEET-------TEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhcCCCCccCCCCCceeEEEEEC-------CEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHH
Confidence            689999876554211  1112333334455554       5899999999999998888899999999999999986543


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+..+.    ..++|+++|+||+|+..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A          108 LLESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             HHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence            3222 2222221    25799999999999965

>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=99.44  E-value=2.2e-14  Score=104.38  Aligned_cols=101  Identities=15%  Similarity=0.047  Sum_probs=68.7

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     ..+..+.+. ......+.+.     +..+++.+|||||++++...+..+++.+|++++|+|+++
T Consensus        15 ~~GKssl~~~l~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   88 (186)
T 1mh1_A           15 AVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVD-----GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVS   88 (186)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEET-----TEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCcCCccc-ceeEEEEEEC-----CEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCC
Confidence            68999998443     333322222 1112223333     457889999999999998888889999999999999986


Q ss_pred             CCChhHHH--HHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV--ALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~--~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.....  +...+...  ++|+++|+||+|+...
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  124 (186)
T 1mh1_A           89 PASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD  124 (186)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTC
T ss_pred             hhhHHHHHHHHHHHHHHhCCCCCEEEEeEccccccc
Confidence            44333322  23333332  8999999999999753

>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=99.44  E-value=8.3e-14  Score=101.20  Aligned_cols=102  Identities=19%  Similarity=0.061  Sum_probs=67.7

Q ss_pred             ccccccccCCchhHHHc----CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER----GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~----giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-.    ..+.......+.+.     +..+.+.||||||++++...+..+++.+|++++|+|+++.
T Consensus        28 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  102 (187)
T 2a9k_A           28 GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLD-----GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM  102 (187)
T ss_dssp             TSSHHHHHHHHHHSCCCCSCCTTCCEEEEEEEEET-----TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHhhCCCCCcCCCccceEEEEEEEEC-----CEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCH
Confidence            68999998666533211    11111111222333     4467899999999999999999999999999999999854


Q ss_pred             CChhHH-HHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQ-VALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... .++..+.    ..++|+++|+||+|+...
T Consensus       103 ~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  138 (187)
T 2a9k_A          103 ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK  138 (187)
T ss_dssp             HHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            322221 1112221    237999999999999753

>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=99.44  E-value=4.1e-14  Score=105.35  Aligned_cols=102  Identities=19%  Similarity=0.098  Sum_probs=67.7

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+.+.||||||++++...+..+++.+|++|+|+|+++
T Consensus        35 ~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  109 (200)
T 2o52_A           35 GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVG-----GKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS  109 (200)
T ss_dssp             TSSHHHHHHHHHC------------CCEEEEEEEET-----TEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEEC-----CeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcC
Confidence            689999986553     3344455544433444444     446899999999999988888999999999999999986


Q ss_pred             CCChhHH-HHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+.   ..++|+++|+||+|+...
T Consensus       110 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  145 (200)
T 2o52_A          110 RETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE  145 (200)
T ss_dssp             HHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccc
Confidence            4332222 2222222   247899999999999643

>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=99.44  E-value=4.6e-14  Score=103.53  Aligned_cols=101  Identities=20%  Similarity=0.129  Sum_probs=70.0

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+.++.......+.+.     +..+++.||||||++++...+..+++.+|++|+|+|++.
T Consensus        25 ~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   99 (195)
T 1x3s_A           25 GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVD-----GNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR   99 (195)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEEC-----CeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcC
Confidence            68999998666432     23333333333334443     447899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      ....... .++..+..    .++|+++|+||+|+..
T Consensus       100 ~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A          100 RDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             HHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             HHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc
Confidence            4332222 22223322    3688999999999953

>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=99.44  E-value=4.5e-14  Score=103.26  Aligned_cols=99  Identities=16%  Similarity=0.068  Sum_probs=70.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       +..+.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        31 ~~GKSsli~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s  103 (181)
T 2h17_A           31 NAGKTTILYQFSMNEVVHTSPTIGSNVEEIVIN-------NTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRER  103 (181)
T ss_dssp             TSSHHHHHHHHHTTSCEEEECCSSSSCEEEEET-------TEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTT
T ss_pred             CCCHHHHHHHHhcCCCCccCCcCceeeEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHH
Confidence            689999987665332  1222333333444444       6899999999999999889999999999999999987644


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+..+.    ..++|+++|+||+|+..
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  136 (181)
T 2h17_A          104 ISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  136 (181)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHhChhhCCCeEEEEEECCCccc
Confidence            3332 2222222    25789999999999965

>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=99.44  E-value=7.4e-15  Score=110.31  Aligned_cols=105  Identities=16%  Similarity=0.128  Sum_probs=69.4

Q ss_pred             ccccccccCCchhHH---HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ---ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~---~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||++++.+....   ....|+........+...  .+..+.+.+|||||++++......+++.+|++|+|+|++++.
T Consensus        21 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   98 (218)
T 4djt_A           21 GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDD--QGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRI   98 (218)
T ss_dssp             TSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBT--TSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHH
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeC--CCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHH
Confidence            689999998876332   112233222333333221  123378999999999999888899999999999999998654


Q ss_pred             ChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          79 CAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        79 ~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..... ++..+.   ..++|+++|+||+|+...
T Consensus        99 s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  132 (218)
T 4djt_A           99 TCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNR  132 (218)
T ss_dssp             HHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC--
T ss_pred             HHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc
Confidence            433322 222222   236899999999999753

>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=99.43  E-value=5.7e-14  Score=103.91  Aligned_cols=99  Identities=17%  Similarity=0.173  Sum_probs=70.2

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+....  ....|+......+.+.       ++++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        33 ~vGKSsli~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s  105 (190)
T 1m2o_B           33 NAGKTTLLHMLKNDRLATLQPTWHPTSEELAIG-------NIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPER  105 (190)
T ss_dssp             TSSHHHHHHHHHHSCCCCCCCCCSCEEEEEEET-------TEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhcCCCCccccCCCCCeEEEEEC-------CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHH
Confidence            689999987665422  1222444434444444       5899999999999998888889999999999999987544


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+..+.    ..++|+++|+||+|+..
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  138 (190)
T 1m2o_B          106 FDEARVELDALFNIAELKDVPFVILGNKIDAPN  138 (190)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC
Confidence            3322 2222221    25799999999999975

>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=99.43  E-value=3.9e-14  Score=104.30  Aligned_cols=102  Identities=17%  Similarity=0.117  Sum_probs=69.7

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.++.......+.+.     +..+++.||||||++++...+..+++.+|++|+|+|++.
T Consensus        35 ~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~  109 (193)
T 2oil_A           35 GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLG-----TAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTK  109 (193)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEET-----TEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCC
Confidence            689999987665432     2222222222233333     447899999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ...... ..++..+..   .++|+++|+||+|+...
T Consensus       110 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~  145 (193)
T 2oil_A          110 HQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA  145 (193)
T ss_dssp             HHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccc
Confidence            433221 222222322   37899999999999754

>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=99.43  E-value=1.5e-13  Score=100.72  Aligned_cols=100  Identities=16%  Similarity=0.080  Sum_probs=68.0

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+..+.-  ..-|+......+.+.       .+++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        26 ~vGKSsL~~~l~~~~~~~~~~t~g~~~~~~~~~-------~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s   98 (181)
T 1fzq_A           26 NAGKTTLLKQLASEDISHITPTQGFNIKSVQSQ-------GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKR   98 (181)
T ss_dssp             TSSHHHHHHHHCCSCCEEEEEETTEEEEEEEET-------TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhcCCCCcccCcCCeEEEEEEEC-------CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHH
Confidence            6899999866543311  011222222233333       6899999999999999999999999999999999986543


Q ss_pred             hhHH-HHHHHH-H---HcCCCcEEEEECCcchhh
Q psy2609          80 AQTQ-VALKQA-W---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~-~~~~~~-~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      .... ..+..+ .   ..++|+++|+||+|+...
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  132 (181)
T 1fzq_A           99 FEETGQELTELLEEEKLSCVPVLIFANKQDLLTA  132 (181)
T ss_dssp             HHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhChhhcCCCEEEEEECcCcccC
Confidence            3222 222222 1   257899999999999753

>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=99.43  E-value=6.6e-15  Score=107.19  Aligned_cols=100  Identities=20%  Similarity=0.097  Sum_probs=64.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..+.+.... ...+.+.     +..+++.+|||||++++......+++.+|++++|+|+++
T Consensus        16 ~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (181)
T 3t5g_A           16 SVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVN-----GQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTS   89 (181)
T ss_dssp             TSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEET-----TEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEEC-----CEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCC
Confidence            68999997665422     222222111 2223333     446889999999999998888889999999999999985


Q ss_pred             CCChhHH-----HHHHHHHHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-----VALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-----~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+....     .+.......++|+++|+||+|+..
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  125 (181)
T 3t5g_A           90 IKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM  125 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchh
Confidence            3322221     122222234799999999999864

>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=99.43  E-value=3.2e-14  Score=104.05  Aligned_cols=100  Identities=19%  Similarity=0.126  Sum_probs=69.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       ..++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        28 ~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s  100 (186)
T 1ksh_A           28 NAGKTTILKKFNGEDVDTISPTLGFNIKTLEHR-------GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQR  100 (186)
T ss_dssp             TSSHHHHHHHHTTCCCSSCCCCSSEEEEEEEET-------TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhcCCCCcccccCccceEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHH
Confidence            689999986654322  1122333333334443       7899999999999999999999999999999999986544


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .... ..+..+.    ..++|+++|+||+|+...
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (186)
T 1ksh_A          101 MQDCQRELQSLLVEERLAGATLLIFANKQDLPGA  134 (186)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCC
Confidence            3332 2222222    247899999999999653

>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=99.43  E-value=3.2e-14  Score=102.55  Aligned_cols=102  Identities=16%  Similarity=0.010  Sum_probs=60.6

Q ss_pred             ccccccccCCchhHHH----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--hHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKDEQE----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--FSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||++++.+.....    +..........+.+.     +..+++.+|||||+++  +......+++.+|++++|+|++
T Consensus        14 ~vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~   88 (175)
T 2nzj_A           14 GVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVD-----GEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIA   88 (175)
T ss_dssp             TSSHHHHHHHHHCC-----CCCSSSSEEEEEEEET-----TEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETT
T ss_pred             CccHHHHHHHHhcCCCccccCccccceeEEEEEEC-----CEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECC
Confidence            6899999866543221    111122222333343     4467899999999988  4556677888999999999998


Q ss_pred             CCCChhHH-HHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQ-VALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.... .++..+..    .++|+++|+||+|+...
T Consensus        89 ~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~  126 (175)
T 2nzj_A           89 DRGSFESASELRIQLRRTHQADHVPIILVGNKADLARC  126 (175)
T ss_dssp             CHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTT
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccc
Confidence            54332222 22233332    37999999999999753

>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=99.43  E-value=4e-14  Score=105.41  Aligned_cols=101  Identities=18%  Similarity=0.087  Sum_probs=71.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+.+.+|||||++++...+..+++.+|++|+|+|++.
T Consensus        18 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~   92 (206)
T 2bcg_Y           18 GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELD-----GKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD   92 (206)
T ss_dssp             TSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEET-----TEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-----CEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcC
Confidence            689999986554     3334555554444444454     446799999999999998889999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... ++..+..   .++|+++|+||+|+..
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  127 (206)
T 2bcg_Y           93 QESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKD  127 (206)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc
Confidence            44332222 2222222   4689999999999965

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.42  E-value=6.3e-14  Score=102.54  Aligned_cols=99  Identities=16%  Similarity=0.105  Sum_probs=70.0

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH------HHHHHHHHh--cCEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS------SEVSTAVRL--CDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~------~~~~~~l~~--~d~~   68 (161)
                      ++|||++++.+..     +..+++|++.....+.+.       +..+.+|||||++++.      .....+++.  +|++
T Consensus        17 gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (188)
T 2wjg_A           17 NVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYN-------GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   89 (188)
T ss_dssp             TSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET-------TEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             CCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeC-------CcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEE
Confidence            6899999866643     334566666555555554       6899999999998773      345666654  9999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|++.  ......++..+...++|+++|+||+|+....
T Consensus        90 i~v~d~~~--~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  128 (188)
T 2wjg_A           90 VNIVDATA--LERNLYLTLQLMEMGANLLLALNKMDLAKSL  128 (188)
T ss_dssp             EEEEEGGG--HHHHHHHHHHHHTTTCCEEEEEECHHHHHHT
T ss_pred             EEEecchh--HHHHHHHHHHHHhcCCCEEEEEEhhhccccc
Confidence            99999874  1222334444555689999999999997543

>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=99.42  E-value=2.1e-13  Score=100.95  Aligned_cols=102  Identities=19%  Similarity=0.069  Sum_probs=68.2

Q ss_pred             ccccccccCCchhHHH----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-    .+.+.......+.+.     +..+.+.||||||++++...+..+++.+|++++|+|+++.
T Consensus        24 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   98 (206)
T 2bov_A           24 GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLD-----GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM   98 (206)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCTTCCEEEEEEEEET-----TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEC-----CEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCH
Confidence            6899999866643321    111111112233333     4467899999999999999999999999999999999854


Q ss_pred             CChhHH-HHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQ-VALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.... .++..+.    ..++|+++|+||+|+...
T Consensus        99 ~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  134 (206)
T 2bov_A           99 ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK  134 (206)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcccc
Confidence            322221 1222222    237899999999999753

>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=99.42  E-value=6.8e-14  Score=103.65  Aligned_cols=100  Identities=16%  Similarity=0.065  Sum_probs=62.7

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       .+.+.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        39 ~vGKSsLi~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s  111 (192)
T 2b6h_A           39 AAGKTTILYKLKLGEIVTTIPTIGFNVETVEYK-------NICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRER  111 (192)
T ss_dssp             TSSHHHHHHHHCSSCCEEEEEETTEEEEEEEET-------TEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHHhCCccccCCcCceeEEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHH
Confidence            689999876553211  1111333222233333       7899999999999998889999999999999999986543


Q ss_pred             hhHH-HHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          80 AQTQ-VALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .... ..+..+..    .++|+++|+||+|+...
T Consensus       112 ~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  145 (192)
T 2b6h_A          112 VQESADELQKMLQEDELRDAVLLVFANKQDMPNA  145 (192)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC
Confidence            2222 22222221    37899999999999653

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.42  E-value=3.6e-14  Score=107.35  Aligned_cols=101  Identities=16%  Similarity=0.096  Sum_probs=67.3

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..++++.+.....+.+.     +..+.+.||||||+++|...+..+++.+|++|+|+|+++
T Consensus        23 ~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~   97 (223)
T 3cpj_B           23 GVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIE-----GKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISK   97 (223)
T ss_dssp             TSSHHHHHHHHHHCCCCC------CCSEEEEEEEET-----TEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-----CEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCC
Confidence            689999986553     3444555554444445454     446899999999999998888999999999999999986


Q ss_pred             CCChhHHH-HHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-ALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ........ ++..+..   .++|+++|+||+|+..
T Consensus        98 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~  132 (223)
T 3cpj_B           98 SSSYENCNHWLSELRENADDNVAVGLIGNKSDLAH  132 (223)
T ss_dssp             HHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            54333322 2222322   3789999999999975

>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=99.42  E-value=4.1e-14  Score=110.69  Aligned_cols=99  Identities=18%  Similarity=0.161  Sum_probs=73.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH------HHHHHH--HhcCEE
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS------EVSTAV--RLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~------~~~~~l--~~~d~~   68 (161)
                      +||||++++.+...     ..+|+|++.....+.+.       +..+.+|||||+.++..      .+..++  ..+|++
T Consensus        13 g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   85 (271)
T 3k53_A           13 NVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYR-------EKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVI   85 (271)
T ss_dssp             SSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEET-------TEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEE
T ss_pred             CCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEEC-------CceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEE
Confidence            78999998666433     45678887776667666       67899999999987654      455566  579999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcC-CCcEEEEECCcchhhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEK-IQPILVLNKIDRLILE  109 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~-~p~ilv~NK~Dl~~~~  109 (161)
                      ++|+|++..  ......+..+...+ +|+++|+||+|+....
T Consensus        86 i~v~D~~~~--~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  125 (271)
T 3k53_A           86 VDIVDSTCL--MRNLFLTLELFEMEVKNIILVLNKFDLLKKK  125 (271)
T ss_dssp             EEEEEGGGH--HHHHHHHHHHHHTTCCSEEEEEECHHHHHHH
T ss_pred             EEEecCCcc--hhhHHHHHHHHhcCCCCEEEEEEChhcCccc
Confidence            999999863  23344445555566 9999999999987543

>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=99.42  E-value=5.5e-14  Score=118.63  Aligned_cols=99  Identities=14%  Similarity=0.076  Sum_probs=58.7

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH--------HHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE--------VSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~--------~~~~l~~~d~   67 (161)
                      |||||++++.+..+      ..+|+|++.....+.+.       ++.+.||||||++++...        +..+++.+|+
T Consensus       243 nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~-------g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~  315 (476)
T 3gee_A          243 NAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHD-------KTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADL  315 (476)
T ss_dssp             TSSHHHHHHHCC------------------CEEEEET-------TEEEEEEC--------------------CCCSSCSE
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEEC-------CeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCE
Confidence            79999998777544      35678887766666665       679999999999876543        3446788999


Q ss_pred             EEEEEeCCCCCCh----hHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICA----QTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~----~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+|++++...    ....++..+.  ++|+++|+||+|+....
T Consensus       316 vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~  359 (476)
T 3gee_A          316 ILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANA  359 (476)
T ss_dssp             EEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTT
T ss_pred             EEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCcc
Confidence            9999999987765    3344444333  78999999999997543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.42  E-value=2.6e-13  Score=99.47  Aligned_cols=65  Identities=25%  Similarity=0.246  Sum_probs=51.5

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH-HHHHH-HHcCCCcEEEEECCcc
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV-ALKQA-WLEKIQPILVLNKIDR  105 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~-~~~~~-~~~~~p~ilv~NK~Dl  105 (161)
                      ..+.||||||++++...+..+++.+|++++|+|++++....... ++..+ ...++|+++|+||+|+
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D~  159 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKIDK  159 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTTC
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCc
Confidence            89999999999999999999999999999999998654333322 22222 2346899999999993

>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=99.42  E-value=4.4e-14  Score=104.07  Aligned_cols=101  Identities=17%  Similarity=0.075  Sum_probs=66.8

Q ss_pred             ccccccccCCchhHHHc---CCccccceEE-EEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER---GITMKSSSIS-LYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~---giti~~~~~~-~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-.   .-|+...... +...     +..+.+.||||||++++...+..+++.+|++++|+|++..
T Consensus        18 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   92 (199)
T 2gf0_A           18 GVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCD-----KSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSK   92 (199)
T ss_dssp             TSSHHHHHHHHHHSCCCCTTSCCCCEEEEEEEEET-----TEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCcHHHHHHHHHcCCCCCcccCccccceeEEEEEC-----CEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCH
Confidence            68999998766542211   1122111111 1122     4467899999999999999999999999999999999853


Q ss_pred             CChhH-HHHHHHHHH-----cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQAWL-----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~-----~~~p~ilv~NK~Dl~~  107 (161)
                      ..... ..++..+..     .++|+++|+||+|+..
T Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~  128 (199)
T 2gf0_A           93 QSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ  128 (199)
T ss_dssp             HHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc
Confidence            22111 122222222     3789999999999975

>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=99.41  E-value=5.8e-14  Score=109.60  Aligned_cols=98  Identities=24%  Similarity=0.254  Sum_probs=72.2

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH------HHHHHH--HhcCEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS------EVSTAV--RLCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~------~~~~~l--~~~d~~   68 (161)
                      |+|||++++.+..     ...+|+|++.....+.+.       ...+.+|||||+..+..      .+..++  ..+|++
T Consensus        15 nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~-------~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~i   87 (258)
T 3a1s_A           15 NVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYK-------GYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLV   87 (258)
T ss_dssp             TSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET-------TEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEE
T ss_pred             CCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEEC-------CeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEE
Confidence            7899999876654     334688887666666554       68999999999977642      345555  479999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|++..  .....++..+...++|+++|+||+|+...
T Consensus        88 i~V~D~t~~--~~~~~~~~~l~~~~~pvilv~NK~Dl~~~  125 (258)
T 3a1s_A           88 ILVADSVNP--EQSLYLLLEILEMEKKVILAMTAIDEAKK  125 (258)
T ss_dssp             EEEEETTSC--HHHHHHHHHHHTTTCCEEEEEECHHHHHH
T ss_pred             EEEeCCCch--hhHHHHHHHHHhcCCCEEEEEECcCCCCc
Confidence            999999863  22333445556678999999999999754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.41  E-value=5.9e-15  Score=109.80  Aligned_cols=102  Identities=16%  Similarity=0.114  Sum_probs=65.5

Q ss_pred             ccccccccCCchhHHHcC---Cccccc-eEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQERG---ITMKSS-SISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~g---iti~~~-~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-..   -|.... ...+.+.     +..+.+.||||||++++...+..+++.+|++++|+|+++.
T Consensus        34 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  108 (201)
T 3oes_A           34 CVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLG-----KDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSL  108 (201)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCCCSEEEEEEEEC---------CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCH
T ss_pred             CcCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEC-----CEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCH
Confidence            689999987765433111   111111 1111122     4578999999999999988889999999999999999854


Q ss_pred             CChhHHH-HHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          78 ICAQTQV-ALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ....... ++..+.    ..++|+++|+||+|+...
T Consensus       109 ~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  144 (201)
T 3oes_A          109 HSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPE  144 (201)
T ss_dssp             HHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccc
Confidence            3322222 222222    247899999999999754

>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=99.41  E-value=6e-14  Score=99.65  Aligned_cols=101  Identities=16%  Similarity=0.114  Sum_probs=67.2

Q ss_pred             ccccccccCCchhHHHc---CCcccc-ceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER---GITMKS-SSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~---giti~~-~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+....-.   .-|... ....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        13 ~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   87 (166)
T 2ce2_X           13 GVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVID-----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT   87 (166)
T ss_dssp             TSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEET-----TEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHhCcCccccCCccceEEEEEEEEC-----CEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCH
Confidence            68999998766533211   111111 11222233     4467899999999999999999999999999999999854


Q ss_pred             CChhH-HHHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          78 ICAQT-QVALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      ..... ..++..+..    .++|+++|+||+|+..
T Consensus        88 ~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~  122 (166)
T 2ce2_X           88 KSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA  122 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh
Confidence            32222 122222222    2799999999999875

>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=99.41  E-value=9.4e-14  Score=102.33  Aligned_cols=96  Identities=13%  Similarity=0.042  Sum_probs=63.5

Q ss_pred             ccccccccCCchhHHH---cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE---RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~---~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||+++..+....-   ..-|.......+.+.     +..+.+.+|||||++++.     +++.+|++++|+|+++..
T Consensus        30 ~vGKSsL~~~~~~~~~~~~~~~t~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~   99 (184)
T 3ihw_A           30 SSGKSALVHRYLTGTYVQEESPEGGRFKKEIVVD-----GQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEI   99 (184)
T ss_dssp             TSCHHHHHHHHHHSSCCCCCCTTCEEEEEEEEET-----TEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHH
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCCcceEEEEEEEC-----CEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHH
Confidence            6899999865543220   111222112233444     456889999999999887     889999999999998654


Q ss_pred             ChhH-HHHHHHHHH----cCCCcEEEEECCcchh
Q psy2609          79 CAQT-QVALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        79 ~~~~-~~~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      +... ..++..+..    .++|+++|+||+|+..
T Consensus       100 s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  133 (184)
T 3ihw_A          100 SFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA  133 (184)
T ss_dssp             HHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBT
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence            4333 222333322    4689999999999953

>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=99.41  E-value=3.8e-14  Score=103.98  Aligned_cols=101  Identities=16%  Similarity=0.079  Sum_probs=57.5

Q ss_pred             ccccccccCCchhHHHc----CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER----GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~----giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||++++.+......    +.+.......+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++.
T Consensus        31 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~  105 (190)
T 3con_A           31 GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVID-----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNS  105 (190)
T ss_dssp             TSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEET-----TEEEEEEEEECCC-----------CTTCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHcCCCccccCCccceEEEEEEEEC-----CEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCH
Confidence            68999998776533211    11111111223333     4467899999999999999999999999999999999864


Q ss_pred             CChhHHH-HHHHHHH----cCCCcEEEEECCcchh
Q psy2609          78 ICAQTQV-ALKQAWL----EKIQPILVLNKIDRLI  107 (161)
Q Consensus        78 ~~~~~~~-~~~~~~~----~~~p~ilv~NK~Dl~~  107 (161)
                      ....... ++..+..    .++|+++|+||+|+..
T Consensus       106 ~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  140 (190)
T 3con_A          106 KSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT  140 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc
Confidence            4322222 2222222    3799999999999875

>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=99.40  E-value=8.9e-14  Score=104.86  Aligned_cols=100  Identities=10%  Similarity=0.065  Sum_probs=68.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+....     .+.+.... ...+...     +..+.+.||||||+++|...+..+++.+|++|+|+|+++
T Consensus        37 ~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  110 (214)
T 3q3j_B           37 QCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETE-----EQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISR  110 (214)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC-------CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEEC-----CEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcC
Confidence            689999986664332     22222221 1122222     457899999999999999999999999999999999987


Q ss_pred             CCChhH--HHHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQT--QVALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~--~~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+...  ..+...+..  .++|+++|+||+|+..
T Consensus       111 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  145 (214)
T 3q3j_B          111 PETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRT  145 (214)
T ss_dssp             THHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence            544333  222233333  3789999999999975

>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=99.39  E-value=1.4e-13  Score=103.63  Aligned_cols=101  Identities=14%  Similarity=0.044  Sum_probs=53.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+. ......+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        44 ~vGKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  117 (214)
T 2j1l_A           44 GCGKTSLLMVFADGAFPESYTPTVF-ERYMVNLQVK-----GKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTS  117 (214)
T ss_dssp             TSSHHHHHHHHHC-------CCCCC-EEEEEEEEET-----TEEEEEEEEEC---------------CEEEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCCCCCccc-eeEEEEEEEC-----CEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcC
Confidence            689999986664322     22221 1111223333     446789999999999999999999999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .+...+..  .++|+++|+||+|+...
T Consensus       118 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  153 (214)
T 2j1l_A          118 PNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKD  153 (214)
T ss_dssp             HHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhcc
Confidence            4333222  12222222  37899999999999754

>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=99.39  E-value=4.6e-13  Score=113.15  Aligned_cols=97  Identities=16%  Similarity=0.231  Sum_probs=77.6

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-hhH--------HHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-DFS--------SEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-~~~--------~~~~~~l~~~d   66 (161)
                      |||||++++.+..+.      .+|+|.+.....+.+.       +..+.+|||||+. ++.        ..+..+++.+|
T Consensus       253 nvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~-------g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD  325 (482)
T 1xzp_A          253 NVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIR-------GILFRIVDTAGVRSETNDLVERLGIERTLQEIEKAD  325 (482)
T ss_dssp             HHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEET-------TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCS
T ss_pred             CCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecC-------CeEEEEEECCCccccchhhHHHHHHHHHHHHhhccc
Confidence            789999998887664      3577887777777765       6789999999997 542        45678899999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++|+|+|++.+.......+++.+  .++|+++|+||+|+..
T Consensus       326 ~vl~VvD~s~~~s~~~~~il~~l--~~~piivV~NK~DL~~  364 (482)
T 1xzp_A          326 IVLFVLDASSPLDEEDRKILERI--KNKRYLVVINKVDVVE  364 (482)
T ss_dssp             EEEEEEETTSCCCHHHHHHHHHH--TTSSEEEEEEECSSCC
T ss_pred             EEEEEecCCCCCCHHHHHHHHHh--cCCCEEEEEECccccc
Confidence            99999999887776666666554  4789999999999964

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.39  E-value=1e-14  Score=109.03  Aligned_cols=101  Identities=12%  Similarity=0.019  Sum_probs=66.6

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+....     .+.+.. .....+.+.     +..+.+.+|||||+++|...+..+++.+|++|+|+|+++
T Consensus        19 ~~GKTsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   92 (212)
T 2j0v_A           19 AVGKTCMLICYTSNKFPTDYIPTVFD-NFSANVAVD-----GQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLIS   92 (212)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCSSCC-CEEEEEECS-----SCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCccCCCccce-eEEEEEEEC-----CEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCC
Confidence            689999876554322     222211 111222233     457899999999999999888899999999999999986


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .++..+...  ++|+++|+||+|+...
T Consensus        93 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  128 (212)
T 2j0v_A           93 KASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDD  128 (212)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhC
Confidence            4333222  222333332  8999999999999753

>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=99.39  E-value=6.5e-14  Score=103.20  Aligned_cols=101  Identities=15%  Similarity=0.112  Sum_probs=69.1

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+... ....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        28 ~~GKssli~~l~~~~~~~~~~~t~~~~-~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~  101 (194)
T 2atx_A           28 AVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVG-----GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN  101 (194)
T ss_dssp             TSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEESS-----SCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCcccce-eEEEEEEC-----CEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCC
Confidence            689999986665332     1122111 11223333     456899999999999999888999999999999999986


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .++..+...  ++|+++|+||+|+...
T Consensus       102 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  137 (194)
T 2atx_A          102 PASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDD  137 (194)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccc
Confidence            4333222  223333333  8999999999999753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.39  E-value=1.1e-13  Score=102.53  Aligned_cols=100  Identities=16%  Similarity=0.014  Sum_probs=66.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+.+. +.....+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        30 ~~GKssl~~~l~~~~~~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~  103 (201)
T 2q3h_A           30 AVGKTSLVVSYTTNGYPTEYIPTAF-DNFSAVVSVD-----GRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVS  103 (201)
T ss_dssp             TSSHHHHHHHHHC--------CCSS-EEEEEEEEET-----TEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCCCCCccc-ceeEEEEEEC-----CEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCC
Confidence            6899999865542     2222221 1111223333     446789999999999998888889999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+....  .++..+..  .++|+++|+||+|+..
T Consensus       104 ~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  138 (201)
T 2q3h_A          104 PSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLRE  138 (201)
T ss_dssp             HHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhh
Confidence            4433332  12222332  3899999999999975

>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=99.38  E-value=1.2e-14  Score=105.67  Aligned_cols=71  Identities=15%  Similarity=0.093  Sum_probs=50.4

Q ss_pred             CCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH--HHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          38 PEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV--ALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        38 ~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~--~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.+.+|||||++++...+..+++.+|++++|+|+++..+.....  +...+..  .++|+++|+||+|+...
T Consensus        53 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  127 (182)
T 3bwd_D           53 GATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDD  127 (182)
T ss_dssp             -----CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTC
T ss_pred             CEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcC
Confidence            44678889999999999988999999999999999998644333221  2233332  37999999999999753

>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=99.38  E-value=1.1e-13  Score=103.10  Aligned_cols=101  Identities=12%  Similarity=-0.006  Sum_probs=69.4

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+...     ..++++.... ..+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        35 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  108 (201)
T 2gco_A           35 ACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVD-----GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDS  108 (201)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEET-----TEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEEC-----CEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCC
Confidence            68999998655432     2333333221 223333     446799999999999998888889999999999999985


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      .......  .+...+...  ++|+++|+||+|+...
T Consensus       109 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  144 (201)
T 2gco_A          109 PDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQD  144 (201)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcC
Confidence            4322222  223333333  8999999999999753

>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=99.38  E-value=9.1e-14  Score=101.11  Aligned_cols=99  Identities=17%  Similarity=0.086  Sum_probs=66.0

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       +.++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        28 ~~GKssli~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s  100 (183)
T 1moz_A           28 GAGKTTILYRLQIGEVVTTKPTIGFNVETLSYK-------NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDR  100 (183)
T ss_dssp             TSSHHHHHHHTCCSEEEEECSSTTCCEEEEEET-------TEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTT
T ss_pred             CCCHHHHHHHHhcCCcCccCCcCccceEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHH
Confidence            689999886654221  2233444334444444       6899999999999988888899999999999999986644


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+....    ..++|+++|+||+|+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  133 (183)
T 1moz_A          101 MSTASKELHLMLQEEELQDAALLVFANKQDQPG  133 (183)
T ss_dssp             HHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHcChhhCCCeEEEEEECCCCCC
Confidence            3322 2222222    25789999999999965

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.38  E-value=7.6e-14  Score=102.44  Aligned_cols=100  Identities=17%  Similarity=0.013  Sum_probs=68.4

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....  ...-|+......+.+.       ..++.+|||||++++...+..+++.+|++++|+|+++..+
T Consensus        32 ~~GKssli~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s  104 (189)
T 2x77_A           32 NAGKTSILYRLHLGDVVTTVPTVGVNLETLQYK-------NISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDR  104 (189)
T ss_dssp             TSSHHHHHHHTCCSCCEEECSSTTCCEEEEEET-------TEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTT
T ss_pred             CCCHHHHHHHHHcCCCCCcCCCCceEEEEEEEC-------CEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHH
Confidence            689999875552111  1122333333444444       7899999999999988888888999999999999987644


Q ss_pred             hhHH-HHHHHHHH----cCCCcEEEEECCcchhh
Q psy2609          80 AQTQ-VALKQAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~-~~~~~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .... ..+.....    .++|+++|+||+|+...
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A          105 MGVAKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             HHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            3322 22222222    47899999999999753

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.37  E-value=8.2e-13  Score=106.64  Aligned_cols=98  Identities=15%  Similarity=0.195  Sum_probs=67.0

Q ss_pred             ccccccccC----CchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH---HHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMD----SRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS---EVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D----~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~---~~~~~l~~~d~~ilVv   72 (161)
                      .+|||.++.    .+..+.  ..+.|+......+  .      ..+++.+|||||+++|..   .+..++++++++|+|+
T Consensus         9 gvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~v--~------~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~   80 (331)
T 3r7w_B            9 RCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHF--S------TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVI   80 (331)
T ss_dssp             TSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEEE--C------SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEEC
T ss_pred             CCCHHHHHHHHHcCCCCCccceecCeeeeeeEEE--c------cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEE
Confidence            589999873    332221  2345555444433  2      257999999999999964   5789999999999999


Q ss_pred             eCCCCCChhHHHHH----HHHH--HcCCCcEEEEECCcchhh
Q psy2609          73 DCVEGICAQTQVAL----KQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        73 d~~~~~~~~~~~~~----~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      |+++. .......|    ..+.  ..++|+++|+||+|+...
T Consensus        81 Ditd~-~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~  121 (331)
T 3r7w_B           81 DSQDE-YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSE  121 (331)
T ss_dssp             CCSSC-TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCS
T ss_pred             ECCch-HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCch
Confidence            99976 22232222    2111  247899999999999753

>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=99.37  E-value=5.9e-13  Score=103.04  Aligned_cols=98  Identities=16%  Similarity=-0.001  Sum_probs=69.8

Q ss_pred             ccccccccCCchhHH------HcC-CccccceEEEEeecCCCCCCceeEEEEeCCCchhh-----------HHHHHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ------ERG-ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-----------SSEVSTAVR   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~g-iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-----------~~~~~~~l~   63 (161)
                      +||||++++.+....      .++ +|+......+.+.       +.++.||||||+.++           ...+..+++
T Consensus        32 g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~  104 (260)
T 2xtp_A           32 GTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWG-------NREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAP  104 (260)
T ss_dssp             TSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEET-------TEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeC-------CCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCC
Confidence            689999987664332      222 5555554555555       679999999998654           334455778


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHc-----CCCcEEEEE-CCcchh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLE-----KIQPILVLN-KIDRLI  107 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-----~~p~ilv~N-K~Dl~~  107 (161)
                      .+|++|+|+|++. +......++..+...     +.|.++++| |+|+..
T Consensus       105 ~~d~il~V~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A          105 GPHVLLLVTQLGR-YTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNG  153 (260)
T ss_dssp             CCSEEEEEEETTC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTT
T ss_pred             CCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCC
Confidence            8999999999985 666666666666553     578888777 999964

>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=99.37  E-value=8.9e-13  Score=98.84  Aligned_cols=101  Identities=18%  Similarity=0.198  Sum_probs=65.9

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHh----cCEEEEEEeCC-C
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRL----CDGTIIVVDCV-E   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~----~d~~ilVvd~~-~   76 (161)
                      ++|||+++..+....-.. ++.....+....     .....+.+|||||++++...+..+++.    +|++|+|+|++ .
T Consensus        22 g~GKTsl~~~l~~~~~~~-~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~   95 (218)
T 1nrj_B           22 NSGKTSLLTLLTTDSVRP-TVVSQEPLSAAD-----YDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVD   95 (218)
T ss_dssp             TSSHHHHHHHHHHSSCCC-BCCCSSCEEETT-----GGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSC
T ss_pred             CCCHHHHHHHHhcCCCCC-eeeecCceEEEE-----eeCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCC
Confidence            589999987765443111 110011111111     125689999999999999999999988    89999999998 3


Q ss_pred             --CCChhHHHHHHHHH------HcCCCcEEEEECCcchhh
Q psy2609          77 --GICAQTQVALKQAW------LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 --~~~~~~~~~~~~~~------~~~~p~ilv~NK~Dl~~~  108 (161)
                        ........+...+.      ..++|+++|+||+|+...
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  135 (218)
T 1nrj_B           96 PKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  135 (218)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             hHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhccc
Confidence              22222222222222      148999999999999754

>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=99.36  E-value=2.3e-13  Score=101.64  Aligned_cols=101  Identities=12%  Similarity=0.006  Sum_probs=66.7

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..+.++.... ..+.+.     +..+.+.+|||||++++...+..+++.+|++++|+|++.
T Consensus        35 ~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  108 (207)
T 2fv8_A           35 ACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVD-----GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDS  108 (207)
T ss_dssp             TSSHHHHHHHHHHSSCC-------CCEEE-EEEEET-----TEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEEC-----CEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCC
Confidence            6899999865543     22333322211 222333     446789999999999998888889999999999999985


Q ss_pred             CCChhHH--HHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ--VALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      ..+....  .+...+...  ++|+++|+||+|+...
T Consensus       109 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  144 (207)
T 2fv8_A          109 PDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSD  144 (207)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhcc
Confidence            4322222  223333332  8999999999999754

>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=99.36  E-value=1e-12  Score=97.10  Aligned_cols=100  Identities=15%  Similarity=0.070  Sum_probs=65.9

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+.+.+|||||+++ ...+..+++.+|++++|+|+++
T Consensus        38 ~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~  110 (196)
T 2atv_A           38 GVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATID-----DEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITD  110 (196)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEET-----TEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEEC-----CEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcC
Confidence            689999986664332     22222111 1122233     4468899999999988 7778899999999999999985


Q ss_pred             CCChhH-HHHHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+    ...++|+++|+||+|+...
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~  147 (196)
T 2atv_A          111 RGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS  147 (196)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccc
Confidence            322111 1122222    2358999999999999753

>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=99.36  E-value=1.9e-13  Score=100.10  Aligned_cols=100  Identities=12%  Similarity=0.047  Sum_probs=67.9

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+++.+|||||+++|......+++.+|++++|+|+++
T Consensus        17 ~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (184)
T 1m7b_A           17 QCGKTALLHVFAKDCFPENYVPTVFENY-TASFEID-----TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   90 (184)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECS-----SCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEEC-----CEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCC
Confidence            689999987665432     22221111 1122223     557899999999999998888889999999999999986


Q ss_pred             CCChhHH-H-HHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-V-ALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~-~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... . +...+..  .++|+++|+||+|+..
T Consensus        91 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           91 PETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  125 (184)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhc
Confidence            4333222 1 2222322  4789999999999974

>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=99.34  E-value=2.5e-13  Score=101.95  Aligned_cols=100  Identities=12%  Similarity=0.047  Sum_probs=68.1

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+++.||||||+++|......+++.+|++|+|+|+++
T Consensus        38 ~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~  111 (205)
T 1gwn_A           38 QCGKTALLHVFAKDCFPENYVPTVFENY-TASFEID-----TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR  111 (205)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESS-----SSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEEC-----CEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCC
Confidence            689999986665432     22222111 1122222     457899999999999998888889999999999999986


Q ss_pred             CCChhHH--HHHHHHHH--cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ--VALKQAWL--EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~--~~~~~~~~--~~~p~ilv~NK~Dl~~  107 (161)
                      ..+....  .+...+..  .++|+++|+||+|+..
T Consensus       112 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  146 (205)
T 1gwn_A          112 PETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  146 (205)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhcc
Confidence            4332222  12222322  3789999999999974

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.34  E-value=5.7e-13  Score=107.33  Aligned_cols=100  Identities=14%  Similarity=0.020  Sum_probs=64.7

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||++++.+....-  ..-|+......+.+.       .+++.||||||+++|...+..+++.+|++|+|+|+++...
T Consensus       175 ~vGKSsLl~~l~~~~~~~~~pT~~~~~~~~~~~-------~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s  247 (329)
T 3o47_A          175 AAGKTTILYKLKLGEIVTTIPTIGFNVETVEYK-------NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRER  247 (329)
T ss_dssp             TSSHHHHHHHTCSSCCEEEEEETTEEEEEEEET-------TEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSS
T ss_pred             CccHHHHHHHHhCCCCCCcccccceEEEEEecC-------cEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHH
Confidence            6899998866643220  011333333334333       7899999999999999999999999999999999986544


Q ss_pred             hhHH--HHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          80 AQTQ--VALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~~--~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ....  .+...+..   .++|+++|+||+|+...
T Consensus       248 ~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~  281 (329)
T 3o47_A          248 VNEAREELMRMLAEDELRDAVLLVFANKQDLPNA  281 (329)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEEEECccCCcc
Confidence            3322  22222222   38899999999999754

>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=99.33  E-value=8.4e-13  Score=95.66  Aligned_cols=94  Identities=15%  Similarity=0.030  Sum_probs=61.1

Q ss_pred             ccccccccCCchhHH----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ++|||+++..+....    .+.+... ....+.+.     +..+++.+|||||+++     ..+++.+|++++|+|+++.
T Consensus        17 ~vGKTsli~~l~~~~~~~~~~t~~~~-~~~~~~~~-----~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~   85 (178)
T 2iwr_A           17 RSGKSSLIHRFLTGSYQVLEKTESEQ-YKKEMLVD-----GQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDE   85 (178)
T ss_dssp             GGCHHHHHHHHHHSCCCCCSSCSSSE-EEEEEEET-----TEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCH
T ss_pred             CCCHHHHHHHHHhCCCCCcCCCccee-EEEEEEEC-----CEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCH
Confidence            689999986654322    1222111 11223333     4467899999999987     4688999999999999864


Q ss_pred             CChhHHHHH-HHHHH------cCCCcEEEEECCcch
Q psy2609          78 ICAQTQVAL-KQAWL------EKIQPILVLNKIDRL  106 (161)
Q Consensus        78 ~~~~~~~~~-~~~~~------~~~p~ilv~NK~Dl~  106 (161)
                      .+......| .++..      .++|+++|+||+|+.
T Consensus        86 ~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~  121 (178)
T 2iwr_A           86 NSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS  121 (178)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCB
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence            433333222 12221      378999999999995

>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=99.32  E-value=1.6e-12  Score=108.34  Aligned_cols=100  Identities=19%  Similarity=0.189  Sum_probs=72.5

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH------------HHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE------------VSTAVR   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~------------~~~~l~   63 (161)
                      +||||++++.+..+.      .+|+|.+.....+.+.       +..+.+|||||+.++...            ...+++
T Consensus       190 gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~-------g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~  262 (439)
T 1mky_A          190 NVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFID-------GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIE  262 (439)
T ss_dssp             TSSHHHHHHHHHTSTTEEECCCC------CCEEEEET-------TEEEEESSCSCC-----------CCSCCHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEEC-------CEEEEEEECCCCccccccchhhHHHHHHHHHHHHHh
Confidence            789999988776543      3577877776777776       568999999998654322            356889


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+|++++|+|++.+...++..+...+...++|+++|+||+|+...
T Consensus       263 ~ad~vllv~d~~~~~~~~~~~i~~~l~~~~~~~ilv~NK~Dl~~~  307 (439)
T 1mky_A          263 KADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVH  307 (439)
T ss_dssp             HCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTT
T ss_pred             hCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCCc
Confidence            999999999999888877777777777789999999999999753

>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=99.32  E-value=2.7e-13  Score=102.84  Aligned_cols=101  Identities=18%  Similarity=0.022  Sum_probs=64.6

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-hHHHHHHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-FSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      ++|||+++..+..+.      .+.++.+.....+.+.     +..+++.+|||+|.+. +......+++.+|++|+|+|.
T Consensus        47 ~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~-----~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydv  121 (211)
T 2g3y_A           47 GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVD-----GESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSI  121 (211)
T ss_dssp             TSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEET-----TEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEET
T ss_pred             CCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEEC-----CeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEEC
Confidence            689999987664221      1123333223334444     4567899999999987 444556667889999999999


Q ss_pred             CCCCChhHHH-HHHHHH----HcCCCcEEEEECCcchh
Q psy2609          75 VEGICAQTQV-ALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        75 ~~~~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.-+..... ++..+.    ..++|+|+|+||+|+..
T Consensus       122 t~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~  159 (211)
T 2g3y_A          122 TDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR  159 (211)
T ss_dssp             TCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGG
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhc
Confidence            8533322222 222222    23799999999999975

>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=99.32  E-value=1.1e-12  Score=96.48  Aligned_cols=100  Identities=11%  Similarity=0.015  Sum_probs=62.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+....     .+.+.... ...+.+.     +..+.+.||||||++++... ..+++.+|++++|+|+++
T Consensus        31 ~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~  103 (187)
T 3c5c_A           31 GAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVD-----HQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDS  103 (187)
T ss_dssp             TSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEET-----TEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTC
T ss_pred             CCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEEC-----CEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCC
Confidence            689999986664332     22221111 1122223     45788999999999987654 678999999999999985


Q ss_pred             CCChhHHH-HHHHHHH------cCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAWL------EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~~------~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+..      .++|+++|+||+|+...
T Consensus       104 ~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~  142 (187)
T 3c5c_A          104 RQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQY  142 (187)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGG
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhc
Confidence            43322222 2222222      48999999999999653

>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=99.31  E-value=3e-13  Score=106.47  Aligned_cols=97  Identities=21%  Similarity=0.125  Sum_probs=68.2

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH------HHHHHHHH--hcCEE
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS------SEVSTAVR--LCDGT   68 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~------~~~~~~l~--~~d~~   68 (161)
                      |+|||++++.+...     ..+|+|++.....+  .     . ..++.+|||||++++.      ..+..++.  .+|++
T Consensus        13 nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~~--~-----~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~v   84 (272)
T 3b1v_A           13 NSGKTSLFNLITGHNQRVGNWPGVTVERKSGLV--K-----K-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSI   84 (272)
T ss_dssp             TSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEEC--T-----T-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEE
T ss_pred             CCCHHHHHHHHHCCCCcccCCCCCcEEEEEEEE--e-----c-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEE
Confidence            78999998666432     23566766433322  2     3 5689999999998775      45667776  49999


Q ss_pred             EEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          69 IIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        69 ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++|+|++..  .....+...+...++|+++|+||+|+...
T Consensus        85 i~V~D~t~~--e~~~~~~~~l~~~~~p~ilv~NK~Dl~~~  122 (272)
T 3b1v_A           85 LNVVDATNL--ERNLYLTTQLIETGIPVTIALNMIDVLDG  122 (272)
T ss_dssp             EEEEEGGGH--HHHHHHHHHHHHTCSCEEEEEECHHHHHH
T ss_pred             EEEecCCch--HhHHHHHHHHHhcCCCEEEEEEChhhCCc
Confidence            999999752  22233334555579999999999999754

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.31  E-value=1e-11  Score=97.26  Aligned_cols=101  Identities=15%  Similarity=0.192  Sum_probs=66.1

Q ss_pred             ccccccccCC------chhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-------hhHHHH---
Q psy2609           2 LCMVSSYMDS------RKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-------DFSSEV---   58 (161)
Q Consensus         2 ~~g~~~~~D~------~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-------~~~~~~---   58 (161)
                      ++|||++++.      +..+.       .++++++.....+.+.     +...++.+|||||+.       .+....   
T Consensus        18 g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i   92 (274)
T 3t5d_A           18 GLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEG-----GVQLLLTIVDTPGFGDAVDNSNCWQPVIDYI   92 (274)
T ss_dssp             TSSHHHHHHHHSSSCC---------------CCCEEEEEEECC-------CCEEEEEEECCCCSCCSCCTTTTHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecC-----CeEEEEEEEECCCccccccchhhHHHHHHHH
Confidence            6899999754      23333       4455554433333333     445799999999983       344444   


Q ss_pred             ----HHHHHh-------------cCEEEEEEeCC-CCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          59 ----STAVRL-------------CDGTIIVVDCV-EGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        59 ----~~~l~~-------------~d~~ilVvd~~-~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                          ..++..             +|+++++++.+ .+....+..+++.+.. ++|+|+|+||+|+...
T Consensus        93 ~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~-~~pvi~V~nK~D~~~~  159 (274)
T 3t5d_A           93 DSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-KVNIIPLIAKADTLTP  159 (274)
T ss_dssp             HHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT-TSCEEEEESSGGGSCH
T ss_pred             HHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc-cCCEEEEEeccCCCCH
Confidence                666666             77889988665 4777778777777766 8999999999998754

>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=99.30  E-value=4.3e-12  Score=96.27  Aligned_cols=100  Identities=15%  Similarity=0.065  Sum_probs=61.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCc------hhh---HHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH------VDF---SSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~------~~~---~~~~~~~l~~~d~   67 (161)
                      ++|||++++.+....     .++.|.......+.+.       ...+.||||||+      ++.   ......++..+|+
T Consensus        39 ~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~  111 (228)
T 2qu8_A           39 NVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHK-------LNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGV  111 (228)
T ss_dssp             TSSHHHHHHHHTTTCEEEECC-----CEEEEEEEET-------TEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEE
T ss_pred             CCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecC-------CCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccE
Confidence            689999986664332     1223333222222222       578999999999      442   1223445778899


Q ss_pred             EEEEEeCCCCCChh---HHHHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQ---TQVALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~---~~~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|+|+++..+..   ...++..+...  ++|+++|+||+|+...
T Consensus       112 ~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~  157 (228)
T 2qu8_A          112 ILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNM  157 (228)
T ss_dssp             EEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC-
T ss_pred             EEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCc
Confidence            99999998765432   22334444443  8999999999999753

>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=99.29  E-value=8e-13  Score=111.17  Aligned_cols=98  Identities=21%  Similarity=0.212  Sum_probs=67.7

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH--------HHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE--------VSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~--------~~~~l~~~d~   67 (161)
                      |||||++++.+..+.      .+|+|.+.....+.+.       +..+.+|||||+.++...        +..+++.+|+
T Consensus       234 nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~-------g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~  306 (462)
T 3geh_A          234 NVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVG-------GIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADL  306 (462)
T ss_dssp             TSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEET-------TEEEEECC--------------------CCCCSCSE
T ss_pred             CCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEEC-------CEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCE
Confidence            799999998886553      2577777665666665       678999999998765433        3335778999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++.+.......++..+.  ++|+++|+||+|+...
T Consensus       307 vl~VvD~s~~~~~~~~~i~~~l~--~~piivV~NK~Dl~~~  345 (462)
T 3geh_A          307 VLLTIDAATGWTTGDQEIYEQVK--HRPLILVMNKIDLVEK  345 (462)
T ss_dssp             EEEEEETTTCSCHHHHHHHHHHT--TSCEEEEEECTTSSCG
T ss_pred             EEEEeccCCCCCHHHHHHHHhcc--CCcEEEEEECCCCCcc
Confidence            99999999888777766666553  4799999999999754

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.29  E-value=3e-12  Score=109.74  Aligned_cols=69  Identities=23%  Similarity=0.246  Sum_probs=58.1

Q ss_pred             eeEEEEeCCCchh-----------hHHHHHHHHHhcCEEEEEEeCCC-CCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          41 YLINLIDSPGHVD-----------FSSEVSTAVRLCDGTIIVVDCVE-GICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        41 ~~i~iiDTpG~~~-----------~~~~~~~~l~~~d~~ilVvd~~~-~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+++||||||+.+           |...+..++..+|++++|+|++. +.......++..+...+.|+++|+||+|+...
T Consensus       154 ~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          154 ESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVET  233 (550)
T ss_dssp             HHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSCH
T ss_pred             CCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccCH
Confidence            4799999999975           67788899999999999999987 46677777777776677899999999999754


Q ss_pred             h
Q psy2609         109 E  109 (161)
Q Consensus       109 ~  109 (161)
                      +
T Consensus       234 ~  234 (550)
T 2qpt_A          234 Q  234 (550)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.29  E-value=7.7e-13  Score=97.17  Aligned_cols=102  Identities=20%  Similarity=0.164  Sum_probs=60.8

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHh----cCEEEEEEeCC-C
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRL----CDGTIIVVDCV-E   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~----~d~~ilVvd~~-~   76 (161)
                      ++|||++++.+....... ++..........     .....+.+|||||++++...+..+++.    +|++++|+|++ .
T Consensus        58 g~GKSsll~~l~~~~~~~-~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~  131 (193)
T 2ged_A           58 NSGKTSLLTLLTTDSVRP-TVVSQEPLSAAD-----YDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVD  131 (193)
T ss_dssp             TSSHHHHHHHHHHSSCC-------------C-----CCCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCC
T ss_pred             CCCHHHHHHHHhcCCCCc-ccccCCCceeee-----ecCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCC
Confidence            689999987665432110 100000111111     125689999999999887777777776    89999999998 2


Q ss_pred             CCChhH-HHHH-HHHH------HcCCCcEEEEECCcchhhh
Q psy2609          77 GICAQT-QVAL-KQAW------LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~-~~~~-~~~~------~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ...... ...+ ....      ..++|+++|+||+|+....
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          132 PKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             chhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence            211111 1111 1111      1389999999999997543

>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=99.29  E-value=8.4e-13  Score=96.87  Aligned_cols=105  Identities=13%  Similarity=0.066  Sum_probs=63.5

Q ss_pred             ccccccccCCchh-------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSRKD-------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~~~-------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      ++|||+++..+..       +..++++++.....+.+.  ...+..+.+.+|||||+++|......+++.++++++|+|.
T Consensus        12 gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~--~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   89 (184)
T 2zej_A           12 GSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIR--DKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDL   89 (184)
T ss_dssp             TSSHHHHHHHHTCC-----------CSEEEEEEEC-----------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEG
T ss_pred             CCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccc--cCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeC
Confidence            6899999755433       223333333222222111  0013467899999999999998889999999999999999


Q ss_pred             CCCC-ChhH-HHHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          75 VEGI-CAQT-QVALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        75 ~~~~-~~~~-~~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      +++. +... ..++..+..  .++|+++|+||+|+...
T Consensus        90 ~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  127 (184)
T 2zej_A           90 SKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDE  127 (184)
T ss_dssp             GGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCCH
T ss_pred             CcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcccc
Confidence            8652 1111 122222222  37899999999998643

>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=99.28  E-value=6.5e-13  Score=105.28  Aligned_cols=100  Identities=14%  Similarity=0.058  Sum_probs=68.2

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++     +.+..+..+.+ .+.....+...     +..+.+.+|||||++++...+..+++.+|++++|+|+++
T Consensus       165 ~~GKssli~~~~~~~~~~~~~~t~-~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  238 (332)
T 2wkq_A          165 AVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVD-----GKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVS  238 (332)
T ss_dssp             TSSHHHHHHHHHHSCCCCSCCCCS-EEEEEEEEEET-----TEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCChHHHHHHHHhCCCCcccCCcc-cceeEEEEEEC-----CEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCC
Confidence            68999998     44433333222 22222223333     446788899999999999888999999999999999986


Q ss_pred             CCChhHHH--HHHHHHHc--CCCcEEEEECCcchh
Q psy2609          77 GICAQTQV--ALKQAWLE--KIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~--~~~~~~~~--~~p~ilv~NK~Dl~~  107 (161)
                      ..+.....  +...+...  ++|+++|+||+|+..
T Consensus       239 ~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  273 (332)
T 2wkq_A          239 PASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRD  273 (332)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhccc
Confidence            54333321  22333332  899999999999965

>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=99.25  E-value=1.2e-12  Score=97.01  Aligned_cols=101  Identities=18%  Similarity=0.034  Sum_probs=63.9

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-hHHHHHHHHHhcCEEEEEEeC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-FSSEVSTAVRLCDGTIIVVDC   74 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-~~~~~~~~l~~~d~~ilVvd~   74 (161)
                      ++|||++++.+..+.      ..+++.+.....+.+.     +..+++.+|||+|.+. +......+++.+|++++|+|.
T Consensus        16 ~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv   90 (192)
T 2cjw_A           16 GVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVD-----GESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSI   90 (192)
T ss_dssp             TSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEET-----TEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEET
T ss_pred             CCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEEC-----CeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEEC
Confidence            689999987765321      1223333333344444     4577889999999865 333456788999999999999


Q ss_pred             CCCCChhHHH-HHHHHH----HcCCCcEEEEECCcchh
Q psy2609          75 VEGICAQTQV-ALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        75 ~~~~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ++..+..... ++..+.    ..++|+++|+||+|+..
T Consensus        91 ~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~  128 (192)
T 2cjw_A           91 TDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR  128 (192)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGG
T ss_pred             CCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhc
Confidence            8543322222 222222    23789999999999964

>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=99.25  E-value=1.7e-11  Score=93.70  Aligned_cols=99  Identities=18%  Similarity=0.077  Sum_probs=62.3

Q ss_pred             ccccccccCCchh-----HHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCch-----------hhHHHHHHHHH
Q psy2609           2 LCMVSSYMDSRKD-----EQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-----------DFSSEVSTAVR   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-----------~~~~~~~~~l~   63 (161)
                      ++|||++++.+..     ...+  ++|.......+.+.       +..+.+|||||+.           .+......+++
T Consensus        39 g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~  111 (239)
T 3lxx_A           39 GAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWK-------ETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSP  111 (239)
T ss_dssp             TSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEET-------TEEEEEEECCSCC-----CHHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeC-------CceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCC
Confidence            6899998755432     2222  56666555556565       6799999999953           34444555566


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHH-----HcCCCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAW-----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~-----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+|++|+|+|++.... .....+..+.     ....|+++|+||+|+...
T Consensus       112 ~~~~~l~v~d~~~~~~-~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~  160 (239)
T 3lxx_A          112 GPHALLLVVPLGRYTE-EEHKATEKILKMFGERARSFMILIFTRKDDLGD  160 (239)
T ss_dssp             CCSEEEEEEETTCCSS-HHHHHHHHHHHHHHHHHGGGEEEEEECGGGC--
T ss_pred             CCcEEEEEeeCCCCCH-HHHHHHHHHHHHhhhhccceEEEEEeCCccCCc
Confidence            7899999999874333 3333333222     235699999999998754

>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=99.23  E-value=4.5e-12  Score=100.40  Aligned_cols=69  Identities=19%  Similarity=0.176  Sum_probs=54.4

Q ss_pred             ceeEEEEeCCCchh-------------hHHHHHHHHHhcCEEEEEEeC-CCCCChhH-HHHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVD-------------FSSEVSTAVRLCDGTIIVVDC-VEGICAQT-QVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-------------~~~~~~~~l~~~d~~ilVvd~-~~~~~~~~-~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ..++.||||||+.+             +...+..+++.+|++++|+|+ ..+..... ..+++.+...++|+++|+||+|
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK~D  209 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLD  209 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTT
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEEEEEcCcc
Confidence            46899999999854             667788999999999999997 45554333 3566666667899999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       210 l~~~  213 (315)
T 1jwy_B          210 LMDK  213 (315)
T ss_dssp             SSCS
T ss_pred             cCCc
Confidence            9753

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.23  E-value=9.6e-12  Score=96.76  Aligned_cols=99  Identities=19%  Similarity=0.097  Sum_probs=63.9

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHH---------hcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVR---------LCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~---------~~d   66 (161)
                      ++|||++++.+..+.      .++.|.......+.+.       +..+.+|||||++++......+++         .+|
T Consensus        46 g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~  118 (262)
T 3def_A           46 GVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMG-------GFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTID  118 (262)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEET-------TEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEEC
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEEC-------CeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCC
Confidence            689999987665433      2344555544555554       679999999999776433222222         689


Q ss_pred             EEEEEEeCCC-CCChhHHHHHHHHHHc-----CCCcEEEEECCcchh
Q psy2609          67 GTIIVVDCVE-GICAQTQVALKQAWLE-----KIQPILVLNKIDRLI  107 (161)
Q Consensus        67 ~~ilVvd~~~-~~~~~~~~~~~~~~~~-----~~p~ilv~NK~Dl~~  107 (161)
                      ++++|++.+. ........++..+...     ..|+++|+||+|+..
T Consensus       119 ~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          119 VLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             EEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCC
T ss_pred             EEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCC
Confidence            9999998864 3334444444444332     248899999999853

>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=99.21  E-value=3.4e-11  Score=87.73  Aligned_cols=96  Identities=19%  Similarity=0.194  Sum_probs=60.3

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCC-----------chhhHHHHHHHHHh-
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPG-----------HVDFSSEVSTAVRL-   64 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG-----------~~~~~~~~~~~l~~-   64 (161)
                      ++|||++++.+     ..+..+|+|.....  +.+.         .+.+|||||           ++++...+..+++. 
T Consensus        11 ~~GKSsli~~l~~~~~~~~~~~~~t~~~~~--~~~~---------~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (190)
T 2cxx_A           11 NVGKSTLIYRLTGKKVRRGKRPGVTRKIIE--IEWK---------NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDN   79 (190)
T ss_dssp             TSSHHHHHHHHHSCCCSSSSSTTCTTSCEE--EEET---------TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCcCCccCCCCCccceeEE--EecC---------CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhh
Confidence            68999987544     33445566654322  2221         789999999           67788888888776 


Q ss_pred             cC---EEEEEEeCCCCC-----------ChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          65 CD---GTIIVVDCVEGI-----------CAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        65 ~d---~~ilVvd~~~~~-----------~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++   +++.|+|.....           ...+..+...+...++|+++|+||+|+...
T Consensus        80 ~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  137 (190)
T 2cxx_A           80 AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKN  137 (190)
T ss_dssp             GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSC
T ss_pred             hccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCc
Confidence            55   555555553210           011122334445568999999999999753

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.20  E-value=6.3e-11  Score=92.42  Aligned_cols=100  Identities=15%  Similarity=0.071  Sum_probs=63.4

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH-------HHHHHHH--HhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS-------SEVSTAV--RLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~-------~~~~~~l--~~~d   66 (161)
                      ++|||++++.+..+.      .++.|.......+...       ...+.+|||||+.++.       ..+..++  +.+|
T Consensus        49 g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d  121 (270)
T 1h65_A           49 GVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRA-------GFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTID  121 (270)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEET-------TEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEEC
T ss_pred             CCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeC-------CeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCC
Confidence            689999987665433      2345544433333333       7899999999997653       1222222  2689


Q ss_pred             EEEEEEeCCC-CCChhHHHHHHHHHHc-C----CCcEEEEECCcchhh
Q psy2609          67 GTIIVVDCVE-GICAQTQVALKQAWLE-K----IQPILVLNKIDRLIL  108 (161)
Q Consensus        67 ~~ilVvd~~~-~~~~~~~~~~~~~~~~-~----~p~ilv~NK~Dl~~~  108 (161)
                      ++++|+|++. ........++..+... +    +|+++|+||+|+...
T Consensus       122 ~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~  169 (270)
T 1h65_A          122 VLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  169 (270)
T ss_dssp             EEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             EEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCc
Confidence            9999998864 3444444454444322 2    689999999998643

>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=99.17  E-value=2e-11  Score=90.53  Aligned_cols=101  Identities=19%  Similarity=0.126  Sum_probs=69.7

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++..+..     +..+.++.+.....+.+.     +..+++.+|||||++++...+..+++.++++++|+|.+.
T Consensus        15 g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~-----g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (199)
T 2f9l_A           15 GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-----GKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAK   89 (199)
T ss_dssp             TSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEET-----TEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-----CEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcC
Confidence            6899999865543     334555554444455555     456789999999999988888888999999999999985


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ....... .++..+..   .+.|+++|+||+|+..
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~  124 (199)
T 2f9l_A           90 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRH  124 (199)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccc
Confidence            4332221 22222222   3688999999999964

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.15  E-value=3.8e-11  Score=94.20  Aligned_cols=69  Identities=17%  Similarity=0.137  Sum_probs=54.7

Q ss_pred             ceeEEEEeCCCch-------------hhHHHHHHHHHhcCEEE-EEEeCCCCCChhHH-HHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHV-------------DFSSEVSTAVRLCDGTI-IVVDCVEGICAQTQ-VALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~-------------~~~~~~~~~l~~~d~~i-lVvd~~~~~~~~~~-~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ..++.||||||+.             .+...+..+++.++.++ +|+|++.+...++. .+++.+...++|+++|+||+|
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~~i~V~NK~D  203 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLD  203 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGG
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCeEEEEEEccc
Confidence            3689999999963             46677888999998777 69999887766654 456666567899999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       204 l~~~  207 (299)
T 2aka_B          204 LMDE  207 (299)
T ss_dssp             GSCT
T ss_pred             cCCC
Confidence            9754

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.11  E-value=2.1e-11  Score=103.84  Aligned_cols=102  Identities=16%  Similarity=0.145  Sum_probs=67.4

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEE------eecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLY------YKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTII   70 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~------~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~il   70 (161)
                      +||||++++.+....     .+.+...  ..+..      +.. ...+..+.+.+|||||++.+......+++.+|++|+
T Consensus        51 ~vGKSSLl~~l~~~~~~~~~~~t~g~~--~~~~~~~~~~~v~~-~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~  127 (535)
T 3dpu_A           51 MAGKTSLLKQLIGETFDPKESQTHGLN--VVTKQAPNIKGLEN-DDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYML  127 (535)
T ss_dssp             CSSHHHHHHHHHC-----------CCC--EEEEEGGGSGGGTT-CSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEE
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceE--EEEeccccccceee-cCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEE
Confidence            789999987665433     2222222  12111      000 012446899999999999999888899999999999


Q ss_pred             EEeCCCCCChhHHHHHHHHHHc--CCCcEEEEECCcchhh
Q psy2609          71 VVDCVEGICAQTQVALKQAWLE--KIQPILVLNKIDRLIL  108 (161)
Q Consensus        71 Vvd~~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~  108 (161)
                      |+|++..  .....++..+...  ++|+|+|+||+|+...
T Consensus       128 V~D~s~~--~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~  165 (535)
T 3dpu_A          128 LLDSRTD--SNKHYWLRHIEKYGGKSPVIVVMNKIDENPS  165 (535)
T ss_dssp             EECGGGG--GGHHHHHHHHHHHSSSCCEEEEECCTTTCTT
T ss_pred             EEeCCCc--hhHHHHHHHHHHhCCCCCEEEEEECCCcccc
Confidence            9999753  3334444445443  5999999999999753

>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=99.09  E-value=5.6e-11  Score=96.40  Aligned_cols=101  Identities=12%  Similarity=0.025  Sum_probs=65.8

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+...+     .+..|.......+.+.      ....+.+|||||+.+       +.......+..+|++|
T Consensus       168 nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~------~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll  241 (342)
T 1lnz_A          168 SVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETD------DGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIV  241 (342)
T ss_dssp             TSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECS------SSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEE
T ss_pred             CCCHHHHHHHHHcCCCccccCCccccCceEEEEEeC------CCceEEEecCCCCcccccccchhHHHHHHHHHhccEEE
Confidence            799999987665332     2345555554444443      136899999999743       3344445566799999


Q ss_pred             EEEeCCC---CCChhH-HHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVE---GICAQT-QVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~---~~~~~~-~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+|++.   ...... ..+...+..     .++|+++|+||+|+...
T Consensus       242 ~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~  289 (342)
T 1lnz_A          242 HVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA  289 (342)
T ss_dssp             EEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH
T ss_pred             EEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCC
Confidence            9999975   222222 223333333     37899999999999753

>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=99.07  E-value=4e-10  Score=92.01  Aligned_cols=98  Identities=19%  Similarity=0.202  Sum_probs=62.8

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc---------hhhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH---------VDFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~---------~~~~~~~~~~l~~~d~   67 (161)
                      |||||++++.+..     +..++.|++.....+.+.       +..+.+|||||+         +.|. .+...+..+|+
T Consensus       189 naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~-------g~~v~l~DT~G~i~~lp~~lve~f~-~tl~~~~~aD~  260 (364)
T 2qtf_A          189 NSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPIN-------NRKIMLVDTVGFIRGIPPQIVDAFF-VTLSEAKYSDA  260 (364)
T ss_dssp             TSSHHHHHHHHHCC-----------CCSCEEEEEET-------TEEEEEEECCCBCSSCCGGGHHHHH-HHHHGGGGSSE
T ss_pred             CCCHHHHHHHHHCCCccccCCcccccCCEEEEEEEC-------CEEEEEEeCCCchhcCCHHHHHHHH-HHHHHHHhCCE
Confidence            7999999865542     334577777766667666       468999999997         2233 34456788999


Q ss_pred             EEEEEeCCCCC--ChhHH-HHHHHHH---HcCCCcEEEEECCcchh
Q psy2609          68 TIIVVDCVEGI--CAQTQ-VALKQAW---LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        68 ~ilVvd~~~~~--~~~~~-~~~~~~~---~~~~p~ilv~NK~Dl~~  107 (161)
                      +++|+|+++..  ..... .+...+.   ..++|+++|+||+|+..
T Consensus       261 il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~  306 (364)
T 2qtf_A          261 LILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKIN  306 (364)
T ss_dssp             EEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCC
T ss_pred             EEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCC
Confidence            99999997653  11111 1122222   25789999999999864

>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=99.06  E-value=1.5e-10  Score=93.88  Aligned_cols=83  Identities=18%  Similarity=0.161  Sum_probs=59.6

Q ss_pred             CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC---------CCC--hhHHHHHH
Q psy2609          19 GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE---------GIC--AQTQVALK   87 (161)
Q Consensus        19 giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~---------~~~--~~~~~~~~   87 (161)
                      ..|+......+.+.       .+.+.+|||+|++++...+..++++++++|+|+|.++         ...  ......+.
T Consensus       146 ~~TiGi~~~~~~~~-------~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~  218 (340)
T 4fid_A          146 TKTTGIHEYDFVVK-------DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFK  218 (340)
T ss_dssp             CCCCSCEEEEEESS-------SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHH
T ss_pred             cceeeeEEEEEEee-------eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHH
Confidence            34455444455444       7899999999999999999999999999999999971         111  11122233


Q ss_pred             HHHH----cCCCcEEEEECCcchhh
Q psy2609          88 QAWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        88 ~~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      .+..    .++|++|++||+|+...
T Consensus       219 ~i~~~~~~~~~piiLv~NK~DL~~e  243 (340)
T 4fid_A          219 DIMTNEFLKGAVKLIFLNKMDLFEE  243 (340)
T ss_dssp             HHHHCGGGTTSEEEEEEECHHHHHH
T ss_pred             HHhhhhccCCCeEEEEEECchhhhh
Confidence            2222    47899999999999754

>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=99.04  E-value=6.9e-10  Score=82.37  Aligned_cols=97  Identities=18%  Similarity=0.185  Sum_probs=64.3

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch----------hhHHHHHHHH--
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV----------DFSSEVSTAV--   62 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~----------~~~~~~~~~l--   62 (161)
                      +||||++++.+....       ..|.+...  ..+.+.       . .+.+|||||+.          .+......++  
T Consensus        36 g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~--~~~~~~-------~-~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~  105 (210)
T 1pui_A           36 NAGKSSALNTLTNQKSLARTSKTPGRTQLI--NLFEVA-------D-GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEK  105 (210)
T ss_dssp             TSSHHHHHTTTCCC-------------CCE--EEEEEE-------T-TEEEEECCCCC------CCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCccccccCCCccceee--EEEEec-------C-CEEEEECcCCcccccCHHHHHHHHHHHHHHHHh
Confidence            689999998775432       33444321  122222       2 67899999984          3444445555  


Q ss_pred             -HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          63 -RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        63 -~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                       +.++++++|+|++.+.......+..++...++|+++|+||+|+...
T Consensus       106 ~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~s~  152 (210)
T 1pui_A          106 RQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLAS  152 (210)
T ss_dssp             CTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCH
T ss_pred             hhcccEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEecccCCCc
Confidence             4688999999998877665555666666778999999999998754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.03  E-value=2e-10  Score=100.84  Aligned_cols=68  Identities=18%  Similarity=0.173  Sum_probs=55.0

Q ss_pred             eeEEEEeCCCchh---hHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHH-HHHHcCCCcEEEEECCcchhh
Q psy2609          41 YLINLIDSPGHVD---FSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALK-QAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        41 ~~i~iiDTpG~~~---~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~-~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.||||||+.+   ....+..+++.+|++|+|+|++.+....+...+. .+...+.|+++|+||+|+...
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCCEEEEEECGGGGGG
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCCEEEEEECcccccc
Confidence            4699999999765   4567888999999999999999887776665554 444457899999999999754

>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=99.03  E-value=1.7e-10  Score=93.61  Aligned_cols=69  Identities=17%  Similarity=0.162  Sum_probs=52.5

Q ss_pred             ceeEEEEeCCCchhh-------------HHHHHHHHHhcCEEEEEEeCCC-CCC-hhHHHHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDF-------------SSEVSTAVRLCDGTIIVVDCVE-GIC-AQTQVALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~-------------~~~~~~~l~~~d~~ilVvd~~~-~~~-~~~~~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ...+.+|||||+.++             ...+..+++.+|++|+|+|+.. ... .....++..+...+.|+|+|+||+|
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~D  214 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKID  214 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGG
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCc
Confidence            457999999998876             7788999999999999998643 222 2334455555556889999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       215 l~~~  218 (360)
T 3t34_A          215 LMDK  218 (360)
T ss_dssp             GCCT
T ss_pred             cCCC
Confidence            9753

>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=99.00  E-value=1.6e-10  Score=94.08  Aligned_cols=82  Identities=15%  Similarity=0.067  Sum_probs=59.1

Q ss_pred             CccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC---------C--hhHHHHHHH
Q psy2609          20 ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI---------C--AQTQVALKQ   88 (161)
Q Consensus        20 iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~---------~--~~~~~~~~~   88 (161)
                      .|+......+.+.       .+.+.+|||+|++++...+..++++++++|+|+|.++.-         .  .....++..
T Consensus       179 ~T~Gi~~~~~~~~-------~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~  251 (353)
T 1cip_A          179 KTTGIVETHFTFK-------DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDS  251 (353)
T ss_dssp             CCCSEEEEEEEET-------TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHH
T ss_pred             ceeceEEEEEeeC-------CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHH
Confidence            3444444445444       789999999999999999999999999999999998521         1  111222222


Q ss_pred             HHH----cCCCcEEEEECCcchhh
Q psy2609          89 AWL----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        89 ~~~----~~~p~ilv~NK~Dl~~~  108 (161)
                      +..    .++|+|||+||+|+...
T Consensus       252 i~~~~~~~~~piiLv~NK~DL~~~  275 (353)
T 1cip_A          252 ICNNKWFTDTSIILFLNKKDLFEE  275 (353)
T ss_dssp             HHTCGGGTTSEEEEEEECHHHHHH
T ss_pred             HHcCccccCCcEEEEEECcCchhh
Confidence            222    47899999999999643

>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=99.00  E-value=1.2e-10  Score=86.08  Aligned_cols=101  Identities=18%  Similarity=0.111  Sum_probs=68.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      +||||+++..+...     ..+.++.+.....+.+.     +..+.+.+|||||++++...+..+++.++++++|+|...
T Consensus        39 g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~-----g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~  113 (191)
T 1oix_A           39 GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-----GKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAK  113 (191)
T ss_dssp             TSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEET-----TEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTC
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEEC-----CEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcC
Confidence            68999998655433     23344444344455555     446778899999999988888889999999999999875


Q ss_pred             CCChhHH-HHHHHHHH---cCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQAWL---EKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~~---~~~p~ilv~NK~Dl~~  107 (161)
                      ....... .++..+..   .+.|+++++||+|+..
T Consensus       114 ~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~  148 (191)
T 1oix_A          114 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRH  148 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            4322111 12222222   3678999999999964

>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=98.97  E-value=5.7e-10  Score=92.26  Aligned_cols=69  Identities=25%  Similarity=0.219  Sum_probs=53.3

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC----------CCChhH-HHHHHHHHH----cCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE----------GICAQT-QVALKQAWL----EKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~----------~~~~~~-~~~~~~~~~----~~~p~ilv~NK~D  104 (161)
                      .+.+.+|||+|++++...+..++++++++|+|+|.++          .-+... ..++..+..    .++|++||+||+|
T Consensus       216 ~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~D  295 (402)
T 1azs_C          216 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQD  295 (402)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHH
T ss_pred             CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChh
Confidence            6899999999999999999999999999999999985          111111 222332222    3689999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       296 L~~~  299 (402)
T 1azs_C          296 LLAE  299 (402)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            9654

>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=98.95  E-value=5.6e-10  Score=90.02  Aligned_cols=83  Identities=14%  Similarity=0.121  Sum_probs=58.7

Q ss_pred             CccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC-------CCCCh----hHHHHHHH
Q psy2609          20 ITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV-------EGICA----QTQVALKQ   88 (161)
Q Consensus        20 iti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~-------~~~~~----~~~~~~~~   88 (161)
                      -|+......+.+.       .+++.+|||+|++++...+..++++++++|+|+|.+       +....    .....+..
T Consensus       153 ~TiGi~~~~~~~~-------~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~  225 (327)
T 3ohm_A          153 PTTGIIEYPFDLQ-------SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRT  225 (327)
T ss_dssp             CCCSEEEEEEEET-------TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHH
T ss_pred             ceeeEEEEEEEee-------ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHH
Confidence            3444444445444       789999999999999999999999999999999765       21111    11222332


Q ss_pred             HHH----cCCCcEEEEECCcchhhh
Q psy2609          89 AWL----EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        89 ~~~----~~~p~ilv~NK~Dl~~~~  109 (161)
                      +..    .++|++|++||+|+....
T Consensus       226 i~~~~~~~~~~iiL~~NK~DL~~~k  250 (327)
T 3ohm_A          226 IITYPWFQNSSVILFLNKKDLLEEK  250 (327)
T ss_dssp             HHTSGGGTTCEEEEEEECHHHHHHH
T ss_pred             HhhhhccCCceEEEEEECchhhhhh
Confidence            222    478999999999997643

>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=98.95  E-value=1.2e-09  Score=88.42  Aligned_cols=69  Identities=16%  Similarity=0.127  Sum_probs=50.6

Q ss_pred             ceeEEEEeCCCch-------------hhHHHHHHHHHhcC-EEEEEEeCCCCCChhHH-HHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHV-------------DFSSEVSTAVRLCD-GTIIVVDCVEGICAQTQ-VALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~-------------~~~~~~~~~l~~~d-~~ilVvd~~~~~~~~~~-~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ..++.||||||+.             .+...+..+++.++ ++++|+|+..++...+. .+++.+...+.|+++|+||+|
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~~~~~~i~V~NK~D  208 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQGQRTIGVITKLD  208 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCTTCTTEEEEEECGG
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCcCCCceEEEecccc
Confidence            4689999999963             45667778887665 55557777766665554 356666667899999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       209 l~~~  212 (353)
T 2x2e_A          209 LMDE  212 (353)
T ss_dssp             GSCT
T ss_pred             ccCc
Confidence            9743

>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=98.93  E-value=3.6e-10  Score=92.29  Aligned_cols=69  Identities=16%  Similarity=0.109  Sum_probs=46.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC---------C-Ch-hHHHHHHHHHH----cCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG---------I-CA-QTQVALKQAWL----EKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~---------~-~~-~~~~~~~~~~~----~~~p~ilv~NK~D  104 (161)
                      .+.+.+|||||++++...+..++++++++|+|+|.++-         . +. ....++..+..    .++|+|||+||+|
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~D  279 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTD  279 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChh
Confidence            78999999999999999999999999999999999862         1 11 11222332222    4789999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       280 L~~~  283 (362)
T 1zcb_A          280 LLEE  283 (362)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            9753

>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=98.89  E-value=4.6e-10  Score=91.42  Aligned_cols=70  Identities=17%  Similarity=0.111  Sum_probs=51.0

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC----------CCCCh-hHHHHHHHHH----HcCCCcEEEEECC
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV----------EGICA-QTQVALKQAW----LEKIQPILVLNKI  103 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~----------~~~~~-~~~~~~~~~~----~~~~p~ilv~NK~  103 (161)
                      +.+.+.+|||+|++++...+..++++++++|+|+|.+          ..-+. ....++..+.    ..++|++||+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            4789999999999999999999999999999999986          11111 1122232222    1478999999999


Q ss_pred             cchhh
Q psy2609         104 DRLIL  108 (161)
Q Consensus       104 Dl~~~  108 (161)
                      |+...
T Consensus       261 DL~~~  265 (354)
T 2xtz_A          261 DIFEK  265 (354)
T ss_dssp             HHHHH
T ss_pred             chhhh
Confidence            99754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.88  E-value=1.4e-09  Score=88.21  Aligned_cols=100  Identities=16%  Similarity=0.074  Sum_probs=60.9

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhH---------HHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFS---------SEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~---------~~~~~~l~~~d~   67 (161)
                      ++|||++++.+....     .++.|.......+.+.       ...+.+|||||+.++.         .........+|+
T Consensus       177 gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~  249 (357)
T 2e87_A          177 NVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG-------YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNL  249 (357)
T ss_dssp             TSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET-------TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSE
T ss_pred             CCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec-------CceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCE
Confidence            689999986654322     2344444333333332       5789999999985421         122223346899


Q ss_pred             EEEEEeCCCCC--ChhH-HHHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGI--CAQT-QVALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~--~~~~-~~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++...  .... ..++..+..  .++|+++|+||+|+...
T Consensus       250 illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~  295 (357)
T 2e87_A          250 IIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADE  295 (357)
T ss_dssp             EEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCH
T ss_pred             EEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCCh
Confidence            99999987543  3222 223333322  27999999999999754

>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=98.87  E-value=9.8e-10  Score=89.50  Aligned_cols=68  Identities=19%  Similarity=0.249  Sum_probs=40.2

Q ss_pred             ceeEEEEeCCCc-------hhhHHHHH-------HHHHhcC-------------EEEEEEeC-CCCCChhHHHHHHHHHH
Q psy2609          40 EYLINLIDSPGH-------VDFSSEVS-------TAVRLCD-------------GTIIVVDC-VEGICAQTQVALKQAWL   91 (161)
Q Consensus        40 ~~~i~iiDTpG~-------~~~~~~~~-------~~l~~~d-------------~~ilVvd~-~~~~~~~~~~~~~~~~~   91 (161)
                      ...+.+|||||+       +.|...+.       .+++.++             +++++++. ..++...+..++..+ .
T Consensus        94 ~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l-~  172 (361)
T 2qag_A           94 KLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI-H  172 (361)
T ss_dssp             EEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT-C
T ss_pred             ccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh-c
Confidence            458999999999       55544444       7777654             46666654 345555555554444 3


Q ss_pred             cCCCcEEEEECCcchhh
Q psy2609          92 EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        92 ~~~p~ilv~NK~Dl~~~  108 (161)
                      .++|+|+|+||+|+...
T Consensus       173 ~~~piIlV~NK~Dl~~~  189 (361)
T 2qag_A          173 NKVNIVPVIAKADTLTL  189 (361)
T ss_dssp             S-SCEEEEEECCSSSCH
T ss_pred             cCCCEEEEEECCCCCCH
Confidence            67999999999999754

>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=98.86  E-value=2.8e-11  Score=93.83  Aligned_cols=44  Identities=25%  Similarity=0.266  Sum_probs=29.6

Q ss_pred             hcCEEEEEEeCCCC--CChhHH-HHHHHH----HHcCCCcEEEEECCcchh
Q psy2609          64 LCDGTIIVVDCVEG--ICAQTQ-VALKQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        64 ~~d~~ilVvd~~~~--~~~~~~-~~~~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      .+|++|+|+|+++.  .+.... .++..+    ...++|+++|+||+|+..
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~  212 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGV  212 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBC
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccc
Confidence            69999999999875  333222 222222    235799999999999864

>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=98.84  E-value=1e-09  Score=90.51  Aligned_cols=76  Identities=14%  Similarity=0.098  Sum_probs=38.6

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCC----------C------CC-CceeEEEEeCCCchhhH----
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNK----------D------TP-EEYLINLIDSPGHVDFS----   55 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~----------~------~~-~~~~i~iiDTpG~~~~~----   55 (161)
                      |+|||++++.+....     .++.|++.......+....          +      .+ +..++.||||||+.+..    
T Consensus        10 nvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG~~~~a~~~~   89 (397)
T 1wxq_A           10 NVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHEGR   89 (397)
T ss_dssp             TSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC----------
T ss_pred             CCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCCcccchhhhh
Confidence            799999987765443     3445655444332221000          0      01 13689999999986421    


Q ss_pred             HH---HHHHHHhcCEEEEEEeCCCC
Q psy2609          56 SE---VSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus        56 ~~---~~~~l~~~d~~ilVvd~~~~   77 (161)
                      ..   ...+++.+|++++|+|++++
T Consensus        90 ~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           90 GLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             -----CCCSSTTCSEEEEEEETTCC
T ss_pred             hHHHHHHHHHhcCCEEEEEEecccc
Confidence            11   22456889999999999865

>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=98.62  E-value=1.7e-09  Score=85.91  Aligned_cols=65  Identities=17%  Similarity=0.032  Sum_probs=51.6

Q ss_pred             eEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-ChhH-HHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          42 LINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-CAQT-QVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++.+|||  +++|...+..+++++|++|+|+|+++.. .... ..++..+...++|+++|+||+|+...
T Consensus        64 ~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~~piilv~NK~DL~~~  130 (301)
T 1u0l_A           64 SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDE  130 (301)
T ss_dssp             SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCH
T ss_pred             eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEeHHHcCCc
Confidence            7999999  9999988999999999999999998654 3322 22333444568999999999999753

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.60  E-value=3.2e-08  Score=81.13  Aligned_cols=97  Identities=20%  Similarity=0.248  Sum_probs=69.6

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |+|||++++.+..     ..-++.|++.....+.+.       +.++.|+||||..+       ........++.||+++
T Consensus        82 NvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~-------~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il  154 (376)
T 4a9a_A           82 SVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYK-------GAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLF  154 (376)
T ss_dssp             CHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEET-------TEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEE
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeC-------CcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccc
Confidence            7999999866542     345688888777777776       78999999999743       3456778889999999


Q ss_pred             EEEeCCCCCChhHHHHHHHHHH-----cCCCcEEEEECCcch
Q psy2609          70 IVVDCVEGICAQTQVALKQAWL-----EKIQPILVLNKIDRL  106 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~  106 (161)
                      +|+|+.++.... ..+...+..     .+.|.++++||+|..
T Consensus       155 ~vvD~~~p~~~~-~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          155 IILDVNKPLHHK-QIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             EEEETTSHHHHH-HHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             cccccCccHHHH-HHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            999998643221 122222222     367889999999974

>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=98.58  E-value=1.4e-07  Score=83.55  Aligned_cols=69  Identities=16%  Similarity=0.097  Sum_probs=54.7

Q ss_pred             ceeEEEEeCCCchh-------------hHHHHHHHHH-hcCEEEEEEeCCCCCChhHH-HHHHHHHHcCCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVD-------------FSSEVSTAVR-LCDGTIIVVDCVEGICAQTQ-VALKQAWLEKIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~-------------~~~~~~~~l~-~~d~~ilVvd~~~~~~~~~~-~~~~~~~~~~~p~ilv~NK~D  104 (161)
                      ..++.|+||||..+             +...+..++. .+|++++|+|++.++..++. .++..+...+.|+|+|+||+|
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~pvIlVlNKiD  228 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLD  228 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSSEEEEEECTT
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCCEEEEEeCcc
Confidence            45899999999643             3445566664 68999999999988777666 677777777899999999999


Q ss_pred             chhh
Q psy2609         105 RLIL  108 (161)
Q Consensus       105 l~~~  108 (161)
                      +...
T Consensus       229 lv~~  232 (772)
T 3zvr_A          229 LMDE  232 (772)
T ss_dssp             SSCT
T ss_pred             cCCc
Confidence            9754

>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=98.38  E-value=4.7e-07  Score=69.31  Aligned_cols=68  Identities=21%  Similarity=0.067  Sum_probs=45.4

Q ss_pred             ceeEEEEeCCCchhhHHH------HHHHHHhcCEEEEEEeCCCCCChhHHHH-----HHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSE------VSTAVRLCDGTIIVVDCVEGICAQTQVA-----LKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~------~~~~l~~~d~~ilVvd~~~~~~~~~~~~-----~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.++||||||+.++...      ...++.. +++++|+|+...........     .......++|+++|+||+|+...
T Consensus       108 ~~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~  186 (262)
T 1yrb_A          108 ENDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  186 (262)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cCCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccccc
Confidence            358999999999765432      2234455 78888999875554443221     12223457999999999998643

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.33  E-value=8.1e-08  Score=77.79  Aligned_cols=61  Identities=16%  Similarity=0.158  Sum_probs=38.3

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.+.|+||||.....   ......+|++++|+|+..+...+.  +..  .....|.++|+||+|+..
T Consensus       166 ~~~~iliDT~Gi~~~~---~~l~~~~d~vl~V~d~~~~~~~~~--i~~--~il~~~~ivVlNK~Dl~~  226 (349)
T 2www_A          166 GYDIILIETVGVGQSE---FAVADMVDMFVLLLPPAGGDELQG--IKR--GIIEMADLVAVTKSDGDL  226 (349)
T ss_dssp             TCSEEEEECCCC--CH---HHHHTTCSEEEEEECCC----------------CCSCSEEEECCCSGGG
T ss_pred             CCCEEEEECCCcchhh---hhHHhhCCEEEEEEcCCcchhHHH--hHH--HHHhcCCEEEEeeecCCC
Confidence            5789999999974321   334678999999999976532211  111  113579999999999964

>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=98.32  E-value=2.9e-07  Score=74.18  Aligned_cols=62  Identities=23%  Similarity=0.170  Sum_probs=41.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++.++||||||+.++...   ..+.+|++++|+|+..+...+...  .  ...++|.++|+||+|+...
T Consensus       148 ~~~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~~l~--~--~~~~~p~ivv~NK~Dl~~~  209 (341)
T 2p67_A          148 GYDVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQGIK--K--GLMEVADLIVINKDDGDNH  209 (341)
T ss_dssp             TCSEEEEEEECCTTHHHH---HHTTCSEEEEEECC------CCCC--H--HHHHHCSEEEECCCCTTCH
T ss_pred             CCCEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHHHHH--H--hhhcccCEEEEECCCCCCh
Confidence            578999999998765543   468999999999987543211110  0  1125789999999999653

>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=98.27  E-value=7e-07  Score=72.86  Aligned_cols=75  Identities=17%  Similarity=0.130  Sum_probs=49.5

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCC---------C-CCCceeEEEEeCCCchhhHH-------HHH
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNK---------D-TPEEYLINLIDSPGHVDFSS-------EVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~---------~-~~~~~~i~iiDTpG~~~~~~-------~~~   59 (161)
                      |+|||++++.+...     ..++.|++.....+.+....         + .....++.||||||+.++..       ...
T Consensus        12 nvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~gl~~~fl   91 (363)
T 1jal_A           12 NVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGNKFL   91 (363)
T ss_dssp             TSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTCCHH
T ss_pred             CCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccccchHHHHHH
Confidence            79999998777542     33456776655545443100         0 00015799999999987542       245


Q ss_pred             HHHHhcCEEEEEEeCCC
Q psy2609          60 TAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~~   76 (161)
                      .+++.+|++++|+|+++
T Consensus        92 ~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           92 ANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHHHTCSEEEEEEECSC
T ss_pred             HHHHhcCeEEEEEecCC
Confidence            67899999999999985

>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=98.27  E-value=2.5e-07  Score=74.92  Aligned_cols=62  Identities=19%  Similarity=0.165  Sum_probs=43.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++.++||||||...   .....+..+|++++|+|+..+...+...  .  ....+|.++|+||+|+...
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~--~--~~~~~p~ivVlNK~Dl~~~  232 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIK--K--GVLELADIVVVNKADGEHH  232 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCC--T--TSGGGCSEEEEECCCGGGH
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHH--H--hHhhcCCEEEEECCCCcCh
Confidence            57899999999654   2334458899999999987543221111  1  1124699999999999754

>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=98.17  E-value=1e-06  Score=73.07  Aligned_cols=101  Identities=19%  Similarity=0.135  Sum_probs=57.0

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      +||||+++..+....     .+..|.......+.+.      ....+.++||||+.+       +.......+..++.++
T Consensus       167 gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~------~~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL  240 (416)
T 1udx_A          167 NAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVS------EEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLL  240 (416)
T ss_dssp             GGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECS------SSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEE
T ss_pred             CCcHHHHHHHHHcCCccccCcccceecceeeEEEec------CcceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhh
Confidence            689999875543221     1222333333333333      136899999999732       2222233456699999


Q ss_pred             EEEeCCCCCChhHHHHHHHHH-----HcCCCcEEEEECCcchhh
Q psy2609          70 IVVDCVEGICAQTQVALKQAW-----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~-----~~~~p~ilv~NK~Dl~~~  108 (161)
                      .|+|++...........+.+.     ..+.|.++++||+|+...
T Consensus       241 ~vvDls~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~  284 (416)
T 1udx_A          241 YVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE  284 (416)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH
T ss_pred             EEeCCccCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH
Confidence            999997111111111111111     136899999999998643

>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=98.15  E-value=2.4e-06  Score=67.66  Aligned_cols=70  Identities=20%  Similarity=0.282  Sum_probs=42.3

Q ss_pred             CCceeEEEEeCCCc-------hhhHHHHH-------HHHHhcCE-------------EEEEEeCCC-CCChhHHHHHHHH
Q psy2609          38 PEEYLINLIDSPGH-------VDFSSEVS-------TAVRLCDG-------------TIIVVDCVE-GICAQTQVALKQA   89 (161)
Q Consensus        38 ~~~~~i~iiDTpG~-------~~~~~~~~-------~~l~~~d~-------------~ilVvd~~~-~~~~~~~~~~~~~   89 (161)
                      +....+.+|||||+       +++...+.       .+++..++             ++++.+.+. ++......+++.+
T Consensus        73 ~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~~~l~~l  152 (301)
T 2qnr_A           73 GVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI  152 (301)
T ss_dssp             -CCEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHHHHHHHH
T ss_pred             CcccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHHHHHHHH
Confidence            33568999999998       55444443       56665543             555555543 4666655444444


Q ss_pred             HHcCCCcEEEEECCcchhh
Q psy2609          90 WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        90 ~~~~~p~ilv~NK~Dl~~~  108 (161)
                      . .++|+++|+||+|+...
T Consensus       153 ~-~~~~iilV~~K~Dl~~~  170 (301)
T 2qnr_A          153 H-NKVNIVPVIAKADTLTL  170 (301)
T ss_dssp             T-TTSCEEEEECCGGGSCH
T ss_pred             H-hcCCEEEEEEeCCCCCH
Confidence            2 46799999999999753

>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=98.07  E-value=3e-06  Score=70.31  Aligned_cols=68  Identities=19%  Similarity=0.253  Sum_probs=39.1

Q ss_pred             ceeEEEEeCCCchhhHH-------H-------HHHH-----------HHhc--CEEEEEEeCC-CCCChhHHHHHHHHHH
Q psy2609          40 EYLINLIDSPGHVDFSS-------E-------VSTA-----------VRLC--DGTIIVVDCV-EGICAQTQVALKQAWL   91 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~-------~-------~~~~-----------l~~~--d~~ilVvd~~-~~~~~~~~~~~~~~~~   91 (161)
                      ...+.+|||||+.++..       .       ...+           ++.+  ++++++++.+ .++...+..++..+. 
T Consensus        87 ~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~-  165 (418)
T 2qag_C           87 QLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH-  165 (418)
T ss_dssp             CEEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT-
T ss_pred             ccceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh-
Confidence            34799999999876421       1       1111           1223  3455555555 567776665666554 


Q ss_pred             cCCCcEEEEECCcchhh
Q psy2609          92 EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        92 ~~~p~ilv~NK~Dl~~~  108 (161)
                      .++|+|+|+||+|+...
T Consensus       166 ~~v~iIlVinK~Dll~~  182 (418)
T 2qag_C          166 EKVNIIPLIAKADTLTP  182 (418)
T ss_dssp             TTSEEEEEEESTTSSCH
T ss_pred             ccCcEEEEEEcccCccH
Confidence            48999999999998754

>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=98.02  E-value=1.2e-05  Score=63.22  Aligned_cols=61  Identities=23%  Similarity=0.251  Sum_probs=44.1

Q ss_pred             EeCCCch-hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          46 IDSPGHV-DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        46 iDTpG~~-~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      -.-|||. +..+++...+..+|+++.|+|+..+.......+.+++  .++|+++|+||+|+...
T Consensus         4 ~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--~~kp~ilVlNK~DL~~~   65 (282)
T 1puj_A            4 QWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--KNKPRIMLLNKADKADA   65 (282)
T ss_dssp             -----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--SSSCEEEEEECGGGSCH
T ss_pred             cCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--CCCCEEEEEECcccCCH
Confidence            3569986 6778899999999999999999977655433333333  57999999999999753

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=97.99  E-value=2.6e-06  Score=70.18  Aligned_cols=75  Identities=15%  Similarity=0.208  Sum_probs=42.0

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCC---------C-CCCceeEEEEeCCCchhhHH-------HHH
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNK---------D-TPEEYLINLIDSPGHVDFSS-------EVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~---------~-~~~~~~i~iiDTpG~~~~~~-------~~~   59 (161)
                      |+|||++++.+...     ..++.|++.....+.+....         + ..-..++.||||||+.++..       ...
T Consensus        32 nvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as~~~glg~~~l  111 (396)
T 2ohf_A           32 NVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFL  111 (396)
T ss_dssp             SSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----------CCHHH
T ss_pred             CCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccchhhHHHHHHH
Confidence            79999998777554     34566776665555543100         0 00023699999999987544       567


Q ss_pred             HHHHhcCEEEEEEeCCC
Q psy2609          60 TAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~~   76 (161)
                      .+++.+|++++|+|+.+
T Consensus       112 ~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A          112 SHISACDGIFHLTRAFE  128 (396)
T ss_dssp             HHHHTSSSEEEEEEC--
T ss_pred             HHHHhcCeEEEEEecCC
Confidence            88999999999999873

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.98  E-value=1.1e-06  Score=69.73  Aligned_cols=71  Identities=21%  Similarity=0.084  Sum_probs=50.6

Q ss_pred             CCceeEEEEe-CCC-----chhhHHHHHHHHHhcCEEEEEEeCCCCC-ChhH-HHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          38 PEEYLINLID-SPG-----HVDFSSEVSTAVRLCDGTIIVVDCVEGI-CAQT-QVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        38 ~~~~~i~iiD-TpG-----~~~~~~~~~~~l~~~d~~ilVvd~~~~~-~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      |+.+.+..+| +-|     ++++....+.+++++|++++|+|++++. +... ..++..+...++|+++|+||+|+...
T Consensus        47 GD~V~~~~~~~~~g~I~~i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~~~~~~ilV~NK~DL~~~  125 (302)
T 2yv5_A           47 GDYVWGEVVDPNTFAIEEVEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEYFKVEPVIVFNKIDLLNE  125 (302)
T ss_dssp             TCEEEEEEEETTEEEEEEECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCH
T ss_pred             ceEEEEEEccCCeEEEEeeCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHhCCCCEEEEEEcccCCCc
Confidence            3455666666 444     5667666777899999999999998653 4332 23344455678999999999999753

>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=97.89  E-value=1.6e-05  Score=64.80  Aligned_cols=75  Identities=12%  Similarity=0.102  Sum_probs=48.9

Q ss_pred             ccccccccCCchhHHH-----cCCccccceEEEEeecC---------CCC-----CCceeEEEEeCCCchhh-------H
Q psy2609           2 LCMVSSYMDSRKDEQE-----RGITMKSSSISLYYKDN---------KDT-----PEEYLINLIDSPGHVDF-------S   55 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-----~giti~~~~~~~~~~~~---------~~~-----~~~~~i~iiDTpG~~~~-------~   55 (161)
                      |+|||++++.+.....     ++.|+........+...         .+.     ....++.+|||||+.++       .
T Consensus        11 nvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~~lg   90 (368)
T 2dby_A           11 NVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVKGAHKGEGLG   90 (368)
T ss_dssp             SSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCCCCCSSSCTT
T ss_pred             CCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccccccccchHH
Confidence            7899999988765541     23355544433322100         000     01457999999998653       3


Q ss_pred             HHHHHHHHhcCEEEEEEeCCC
Q psy2609          56 SEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        56 ~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .....+++.+|++++|+|+..
T Consensus        91 ~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           91 NQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             HHHHHHHHTCSEEEEEEECCC
T ss_pred             HHHHHHHHhCCEEEEEEECCC
Confidence            456678999999999999985

>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=97.74  E-value=5e-05  Score=57.74  Aligned_cols=58  Identities=9%  Similarity=-0.002  Sum_probs=36.3

Q ss_pred             CchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH-H---HHHHHH----cCCCcEEEEECC-cchh
Q psy2609          50 GHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV-A---LKQAWL----EKIQPILVLNKI-DRLI  107 (161)
Q Consensus        50 G~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~-~---~~~~~~----~~~p~ilv~NK~-Dl~~  107 (161)
                      |+.+++..+..|+.++|++|+|||+++.-...... +   ...+..    .++|+++++||. |++.
T Consensus       111 GQ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~  177 (227)
T 3l82_B          111 SRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK  177 (227)
T ss_dssp             ------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC
T ss_pred             cHHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC
Confidence            78889999999999999999999998643222222 1   222211    478999999995 6754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.68  E-value=3.7e-07  Score=74.42  Aligned_cols=98  Identities=11%  Similarity=0.043  Sum_probs=57.8

Q ss_pred             ccccccccCCchhHH-----------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh-------HHHHHHHH-
Q psy2609           2 LCMVSSYMDSRKDEQ-----------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-------SSEVSTAV-   62 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-------~~~~~~~l-   62 (161)
                      |+||+++++.+....           .+|.|.+...  +.+        ...+.++||||....       .......+ 
T Consensus       172 nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~--~~~--------~~~~~liDtPG~~~~~~~~~~l~~~~l~~~~  241 (369)
T 3ec1_A          172 NVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIE--IPL--------ESGATLYDTPGIINHHQMAHFVDARDLKIIT  241 (369)
T ss_dssp             TSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEE--EEC--------STTCEEEECCSCCCCSSGGGGSCTTTHHHHS
T ss_pred             CCchHHHHHHHHhhccCCccceeecCCCCeEEeeEE--EEe--------CCCeEEEeCCCcCcHHHHHHHHhHHHHHHHh
Confidence            789999998886651           2344443221  111        124899999997432       11223333 


Q ss_pred             --HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          63 --RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        63 --~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                        +..+.+++++++...........+.++...+.|+++++||+|.....
T Consensus       242 ~~~~i~~~~~~l~~~~~~~~g~l~~l~~l~~~~~~~~~v~~k~d~~~~~  290 (369)
T 3ec1_A          242 PKREIHPRVYQLNEGQTLFFGGLARLDYIKGGRRSFVCYMANELTVHRT  290 (369)
T ss_dssp             CSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEEEEEEECTTSCEEEE
T ss_pred             cccccCceEEEEcCCceEEECCEEEEEEccCCCceEEEEecCCcccccc
Confidence              66799999999842211111111223334578999999999987544

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.63  E-value=4.4e-06  Score=62.17  Aligned_cols=62  Identities=16%  Similarity=0.143  Sum_probs=39.9

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.+.+|||||+.....   .+....+.+++|+|++.+...    .+......++|.++|+||+|+...
T Consensus       108 ~~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~----~~~~~~~~~~~~iiv~NK~Dl~~~  169 (221)
T 2wsm_A          108 DCDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV----VEKHPEIFRVADLIVINKVALAEA  169 (221)
T ss_dssp             TCSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH----HHHCHHHHHTCSEEEEECGGGHHH
T ss_pred             CCCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh----hhhhhhhhhcCCEEEEecccCCcc
Confidence            56799999999511000   001246889999999866432    222223346899999999999753

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.61  E-value=0.00013  Score=61.82  Aligned_cols=66  Identities=20%  Similarity=0.261  Sum_probs=43.6

Q ss_pred             CceeEEEEeCCCchh----hHHHHHHHH--HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcchh
Q psy2609          39 EEYLINLIDSPGHVD----FSSEVSTAV--RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~----~~~~~~~~l--~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      ..+.++||||||...    +........  ..+|.+++|+|+..+..  ....+..... .+|+ ++|+||+|...
T Consensus       182 ~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~--~~~~a~~~~~-~~~i~gvVlNK~D~~~  254 (504)
T 2j37_W          182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQA--CEAQAKAFKD-KVDVASVIVTKLDGHA  254 (504)
T ss_dssp             TTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTT--HHHHHHHHHH-HHCCCCEEEECTTSCC
T ss_pred             CCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecccccc--HHHHHHHHHh-hcCceEEEEeCCcccc
Confidence            367899999999753    332322222  26899999999987653  2233333322 2785 89999999863

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.57  E-value=1.5e-05  Score=62.02  Aligned_cols=56  Identities=21%  Similarity=0.339  Sum_probs=39.0

Q ss_pred             CCch-hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          49 PGHV-DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        49 pG~~-~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      |||. +..+++...+..+|+++.|+|+..+.......+ .++   ++|.++|+||+|+...
T Consensus         5 PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l-~ll---~k~~iivlNK~DL~~~   61 (262)
T 3cnl_A            5 PGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGV-DFS---RKETIILLNKVDIADE   61 (262)
T ss_dssp             ----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTS-CCT---TSEEEEEEECGGGSCH
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHH-Hhc---CCCcEEEEECccCCCH
Confidence            7875 345688999999999999999987654332111 112   8999999999999754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.56  E-value=5.3e-05  Score=61.63  Aligned_cols=63  Identities=19%  Similarity=0.003  Sum_probs=42.2

Q ss_pred             EEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          43 INLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        43 i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +.-+++| +++|.+....+++.++++++|+|+.+....+...+.+.+  .++|+++|+||+|+...
T Consensus        51 ~~~v~~~-~e~f~~~L~~~~~~~~lil~VvD~~d~~~s~~~~l~~~l--~~~piilV~NK~DLl~~  113 (369)
T 3ec1_A           51 VQDVPLD-DDDFLSMLHRIGESKALVVNIVDIFDFNGSFIPGLPRFA--ADNPILLVGNKADLLPR  113 (369)
T ss_dssp             ---------CHHHHHHHHHHHHCCEEEEEEETTCSGGGCCSSHHHHC--TTSCEEEEEECGGGSCT
T ss_pred             ccCCcCC-HHHHHHHHHHhhccCcEEEEEEECCCCCCchhhHHHHHh--CCCCEEEEEEChhcCCC
Confidence            3344544 789999999999999999999999875533322222222  37899999999999754

>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=97.52  E-value=0.00011  Score=61.10  Aligned_cols=42  Identities=14%  Similarity=0.137  Sum_probs=31.7

Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++++++|+..++...+..+++.+. .++|+|+|+||+|.....
T Consensus       151 ~v~fI~d~~~~l~~~Dieilk~L~-~~~~vI~Vi~KtD~Lt~~  192 (427)
T 2qag_B          151 CLYFIAPTGHSLKSLDLVTMKKLD-SKVNIIPIIAKADAISKS  192 (427)
T ss_dssp             EEEEECCCC---CHHHHHHHHHTC-SCSEEEEEESCGGGSCHH
T ss_pred             EEEEEeCCCCCCCHHHHHHHHHHh-hCCCEEEEEcchhccchH
Confidence            466788888888888888877775 689999999999987644

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.50  E-value=9.7e-07  Score=71.96  Aligned_cols=98  Identities=8%  Similarity=0.027  Sum_probs=54.3

Q ss_pred             ccccccccCCchhHH------------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhh-------HHH-HHHH
Q psy2609           2 LCMVSSYMDSRKDEQ------------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDF-------SSE-VSTA   61 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~-------~~~-~~~~   61 (161)
                      |+||+++++.+..+.            .+|.|....  .+.+        ...+.++||||..+.       ... ....
T Consensus       170 nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~--~~~~--------~~~~~liDtPG~~~~~~~~~~l~~~~l~~~  239 (368)
T 3h2y_A          170 NVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLI--DIPL--------DEESSLYDTPGIINHHQMAHYVGKQSLKLI  239 (368)
T ss_dssp             TSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEE--EEES--------SSSCEEEECCCBCCTTSGGGGSCHHHHHHH
T ss_pred             CCChhHHHHHHHhhhccccccceecCCCCCeecceE--EEEe--------cCCeEEEeCCCcCcHHHHHHHhhHHHHHHh
Confidence            789999998887653            123333221  1111        113889999997432       111 1221


Q ss_pred             --HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          62 --VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        62 --l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                        .+..+.+++++++...........+.++...++|+++++||+|.....
T Consensus       240 ~~~~~i~~~~~~l~~~~~~~~g~l~~~d~l~~~~~~~~~v~nk~d~~~~~  289 (368)
T 3h2y_A          240 TPTKEIKPMVFQLNEEQTLFFSGLARFDYVSGGRRAFTCHFSNRLTIHRT  289 (368)
T ss_dssp             SCSSCCCCEEEEECTTEEEEETTTEEEEEEESSSEEEEEEECTTSCEEEE
T ss_pred             ccccccCceEEEEcCCCEEEEcceEEEEEecCCCceEEEEecCccccccc
Confidence              245678899998742211111111223334578999999999987544

>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=97.39  E-value=0.00023  Score=56.52  Aligned_cols=60  Identities=8%  Similarity=0.048  Sum_probs=41.2

Q ss_pred             CCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH----HHHHH---H-HcCCCcEEEEEC-Ccchh
Q psy2609          48 SPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV----ALKQA---W-LEKIQPILVLNK-IDRLI  107 (161)
Q Consensus        48 TpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~----~~~~~---~-~~~~p~ilv~NK-~Dl~~  107 (161)
                      -.|+..++..+..|+.++|++|+|||+++.-......    +...+   . ..++|+++++|| .|++.
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~  262 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK  262 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC
Confidence            3578889999999999999999999998653322211    11222   1 158999999997 58754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.37  E-value=7.6e-05  Score=60.69  Aligned_cols=57  Identities=16%  Similarity=-0.013  Sum_probs=40.3

Q ss_pred             CchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          50 GHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        50 G~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..++|.+....+++.++++++|+|+++....+...+.+..  .++|+++|+||+|+...
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~~~~~~~l~~~~--~~~p~ilV~NK~DL~~~  111 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFNGSWLPGLHRFV--GNNKVLLVGNKADLIPK  111 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHHHHCCTTHHHHS--SSSCEEEEEECGGGSCT
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCcccHHHHHHHHh--CCCcEEEEEEChhcCCc
Confidence            4578999999999999999999999853211111111111  37899999999999643

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.06  E-value=0.0036  Score=48.59  Aligned_cols=44  Identities=16%  Similarity=0.147  Sum_probs=35.6

Q ss_pred             cCEEEEEEeCC-CCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 CDGTIIVVDCV-EGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ~d~~ilVvd~~-~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +.++++++|.. .++.+.+..+++.+... +++|+|+||+|....+
T Consensus       112 al~~lllldep~~gL~~lD~~~l~~L~~~-~~vI~Vi~K~D~lt~~  156 (270)
T 3sop_A          112 VHCCLYFISPTGHSLRPLDLEFMKHLSKV-VNIIPVIAKADTMTLE  156 (270)
T ss_dssp             CCEEEEEECCCSSSCCHHHHHHHHHHHTT-SEEEEEETTGGGSCHH
T ss_pred             eeeeeEEEecCCCcCCHHHHHHHHHHHhc-CcEEEEEeccccCCHH
Confidence            47888899854 78888888887777665 8999999999987654

>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=96.86  E-value=0.00053  Score=56.33  Aligned_cols=75  Identities=15%  Similarity=0.207  Sum_probs=50.8

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCC-------CCCC---ceeEEEEeCCCchh-------hHHHH
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNK-------DTPE---EYLINLIDSPGHVD-------FSSEV   58 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~-------~~~~---~~~i~iiDTpG~~~-------~~~~~   58 (161)
                      |||||++++.+...      ..++.|++.....+.+....       ....   ..++.+|||||...       +....
T Consensus        30 naGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~s~~e~L~~~f  109 (392)
T 1ni3_A           30 NVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNAF  109 (392)
T ss_dssp             SSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHHH
T ss_pred             CCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCCcHHHHHHHHH
Confidence            79999998777652      23456777666666554100       0000   14689999999643       45567


Q ss_pred             HHHHHhcCEEEEEEeCCC
Q psy2609          59 STAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        59 ~~~l~~~d~~ilVvd~~~   76 (161)
                      ...++.+|+++.|+|+..
T Consensus       110 l~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          110 LSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             HHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHhccc
Confidence            788899999999999864

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=96.82  E-value=0.0039  Score=45.28  Aligned_cols=64  Identities=19%  Similarity=0.194  Sum_probs=48.4

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc-----CCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE-----KIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-----~~p~ilv~NK~Dl~  106 (161)
                      .+.++++|||+..  ...+...+..+|.+++++...... ......++.+...     ++++.+|+|++|..
T Consensus        75 ~yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           75 DYDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             TSSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             CCCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            5789999999975  456678888999999999987655 5555556655432     45678999999853

>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=96.81  E-value=0.0036  Score=49.34  Aligned_cols=65  Identities=15%  Similarity=0.180  Sum_probs=42.0

Q ss_pred             CceeEEEEeCCCchh--hHHHHH------HHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          39 EEYLINLIDSPGHVD--FSSEVS------TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~--~~~~~~------~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      ..+.++|+||||...  ......      .....+|.+++|+|+..+  .......+... ..+|+ .+++||+|..
T Consensus       179 ~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g--~~~~~~~~~~~-~~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          179 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG--QKAYDLASKFN-QASKIGTIIITKMDGT  252 (297)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG--GGHHHHHHHHH-HTCTTEEEEEECGGGC
T ss_pred             CCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch--HHHHHHHHHHH-hhCCCCEEEEeCCCCC
Confidence            367899999999766  322211      234568999999999753  22333333332 25774 5899999975

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=96.80  E-value=0.004  Score=47.60  Aligned_cols=67  Identities=19%  Similarity=0.009  Sum_probs=46.4

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcc
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl  105 (161)
                      +.+-++|+|||+...........+..+|.+|+|+.............++.+...++|++ +|+|+.|.
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~gvV~N~~~~  194 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQELTAVIVEKAINMAEETNTSVLGLVENMSYF  194 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSSCCHHHHHHHHHHHHTTTCCEEEEEETTCCE
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCccchHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence            36789999999965432233334447899999998775444444555566666688887 89999884

>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=96.65  E-value=0.0054  Score=50.86  Aligned_cols=64  Identities=20%  Similarity=0.279  Sum_probs=40.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHH---HH---hcCEEEEEEeCCCCCChhHHHHHHHHHHcCC-C-cEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTA---VR---LCDGTIIVVDCVEGICAQTQVALKQAWLEKI-Q-PILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~---l~---~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~-p-~ilv~NK~Dl~  106 (161)
                      .+.+.|+||||...........   +.   .+|.+++|+|+..+.  ......... ...+ | ..+|+||+|..
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~--~~~~~~~~~-~~~~~~i~gvVlnK~D~~  251 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ--QAGIQAKAF-KEAVGEIGSIIVTKLDGS  251 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG--GHHHHHHHH-HTTSCSCEEEEEECSSSC
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH--HHHHHHHHH-hhcccCCeEEEEeCCCCc
Confidence            5789999999976532222221   11   478999999997653  222222222 2346 7 67899999975

>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=96.54  E-value=0.0019  Score=51.27  Aligned_cols=50  Identities=18%  Similarity=0.259  Sum_probs=36.5

Q ss_pred             HHHHHHhcCEEEEEEeCCCCCChhHHHHHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          58 VSTAVRLCDGTIIVVDCVEGICAQTQVALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        58 ~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+..+.++|.+++|+|+..+..... .+-+++   ...++|.++|+||+||...
T Consensus        80 ~R~~~anvD~v~~V~~~~~p~~~~~-~i~r~L~~~~~~~~~~vivlnK~DL~~~  132 (307)
T 1t9h_A           80 IRPPICNVDQAVLVFSAVQPSFSTA-LLDRFLVLVEANDIQPIICITKMDLIED  132 (307)
T ss_dssp             TTTTEECCCEEEEEEESTTTTCCHH-HHHHHHHHHHTTTCEEEEEEECGGGCCC
T ss_pred             hHHHHHhCCEEEEEEeCCCCCCCHH-HHHHHHHHHHHCCCCEEEEEECCccCch
Confidence            3346888999999999986554333 333333   4568999999999999754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.54  E-value=0.0011  Score=53.11  Aligned_cols=60  Identities=17%  Similarity=0.136  Sum_probs=37.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++++.|+||||..+-..   .....+|.+++|+|+..+...  ..+...  ...+|.++++||+|+.
T Consensus       147 ~~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~--~~i~~~--i~~~~~ivvlNK~Dl~  206 (337)
T 2qm8_A          147 GFDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDEL--QGIKKG--IFELADMIAVNKADDG  206 (337)
T ss_dssp             TCCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC--------CCTT--HHHHCSEEEEECCSTT
T ss_pred             CCCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccH--HHHHHH--HhccccEEEEEchhcc
Confidence            67899999999864321   234689999999998643211  001000  0135778899999964

>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=96.41  E-value=0.0081  Score=50.06  Aligned_cols=64  Identities=20%  Similarity=0.198  Sum_probs=39.2

Q ss_pred             ceeEEEEeCCCchh----hHHHHH--HHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVS--TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~--~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+.+.|+||||...    ......  .....+|.+++|+|+..+.  .......... ..+++ .+++||+|..
T Consensus       182 ~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq--~a~~~a~~f~-~~~~i~gVIlTKlD~~  252 (443)
T 3dm5_A          182 GVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQ--QAYNQALAFK-EATPIGSIIVTKLDGS  252 (443)
T ss_dssp             TCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GHHHHHHHHH-HSCTTEEEEEECCSSC
T ss_pred             CCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCch--hHHHHHHHHH-hhCCCeEEEEECCCCc
Confidence            47899999999532    222221  2233478999999998642  2233333222 24455 5899999975

>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=96.20  E-value=0.011  Score=49.22  Aligned_cols=65  Identities=17%  Similarity=0.200  Sum_probs=40.4

Q ss_pred             ceeEEEEeCCCchh------hHHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD------FSSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~------~~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+.+.|+||||...      +........+  ..+.+++|+|+..+.  ............-.+..+++||+|..
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq--~a~~~a~~f~~~~~~~gVIlTKlD~~  251 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQ--KAYDLASRFHQASPIGSVIITKMDGT  251 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GGHHHHHHHHHHCSSEEEEEECGGGC
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccch--HHHHHHHHHhcccCCcEEEEeccccc
Confidence            57899999999633      3333333222  358999999998542  22233333332334557899999974

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=95.95  E-value=0.016  Score=44.81  Aligned_cols=66  Identities=14%  Similarity=0.196  Sum_probs=47.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++|+|||+.-... .+......+|.+|+|+..............+.+...+.+++ +|+|++|..
T Consensus       191 ~yD~VIIDtpp~~~~~-d~~~l~~~aD~vilVv~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~~  257 (271)
T 3bfv_A          191 NYNFVIIDTPPVNTVT-DAQLFSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRMPKD  257 (271)
T ss_dssp             HCSEEEEECCCTTTCS-HHHHHHHHHCEEEEEEETTSCCHHHHHHHHHHHHTTTCEEEEEEEEEECC-
T ss_pred             CCCEEEEeCCCCchHH-HHHHHHHHCCEEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEeCCcCC
Confidence            4679999999964321 23344567899999999876555555666666666778877 889999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.89  E-value=0.026  Score=46.74  Aligned_cols=64  Identities=25%  Similarity=0.255  Sum_probs=39.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHH------HHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVST------AVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~------~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+.++|+||||...+......      .+..++.+++|+|+..+.  ......... ...+++ -+++||+|..
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~--~~~~~~~~f-~~~l~i~gvVlnK~D~~  253 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQ--DAANTAKAF-NEALPLTGVVLTKVDGD  253 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCT--THHHHHHHH-HHHSCCCCEEEECTTSS
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhH--HHHHHHHHH-hccCCCeEEEEecCCCC
Confidence            678999999997543222222      233578999999998652  222222222 224664 4799999964

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.84  E-value=0.0095  Score=44.08  Aligned_cols=65  Identities=14%  Similarity=0.078  Sum_probs=45.2

Q ss_pred             ceeEEEEeCCCc-hhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH-cCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGH-VDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL-EKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~-~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~-~~~p~ilv~NK~Dl~  106 (161)
                      .+.++++|||+. ...  .+...+..+|.+|+++......-......++.+.. .+.+..+++|+++..
T Consensus        67 ~yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  133 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPDALALDALMLTIETLQKLGNNRFRILLTIIPPY  133 (209)
T ss_dssp             GCSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSSHHHHHHHHHHHHHHHHTCSSSEEEEECSBCCT
T ss_pred             cCCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCCchhHHHHHHHHHHHHhccCCCEEEEEEecCCc
Confidence            578999999997 432  45667889999999998763222233344455544 267778999999864

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=95.80  E-value=0.013  Score=44.37  Aligned_cols=65  Identities=18%  Similarity=0.167  Sum_probs=44.5

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+|+|+.............++.+...+.+.+ +|+|+++..
T Consensus       110 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  175 (263)
T 1hyq_A          110 STDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRITTL  175 (263)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEEECTT
T ss_pred             hCCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCChhHHHHHHHHHHHHHhcCCCeeEEEEccCCcc
Confidence            46799999998644  556778889999999998753222233344455555565554 889999853

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=95.79  E-value=0.011  Score=44.01  Aligned_cols=65  Identities=17%  Similarity=0.162  Sum_probs=44.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+++|+.............++.+...+.+.+ +|+||++..
T Consensus       111 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~~~~~~~~~~~~~~l~~~~~~~~~vv~N~~~~~  176 (237)
T 1g3q_A          111 KFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             GCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEEETSC
T ss_pred             cCCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCCcccHHHHHHHHHHHHhCCCceEEEEEecCCcc
Confidence            57799999998643  456678889999999998763222233344455555565554 789999853

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=95.72  E-value=0.02  Score=44.78  Aligned_cols=66  Identities=21%  Similarity=0.261  Sum_probs=48.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++|||||+..... .+......+|++|+|+.............++.+...+.+++ +|+||+|..
T Consensus       201 ~yD~VIIDtpp~~~~~-da~~l~~~aD~vllVv~~~~~~~~~~~~~~~~l~~~g~~~~GvVlN~v~~~  267 (286)
T 3la6_A          201 NYDLVLIDTPPILAVT-DAAIVGRHVGTTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFRR  267 (286)
T ss_dssp             HCSEEEEECCCTTTCT-HHHHHTTTCSEEEEEEETTTSBHHHHHHHHHHHHHTTCCCCEEEEEEECCC
T ss_pred             CCCEEEEcCCCCcchH-HHHHHHHHCCeEEEEEeCCCCcHHHHHHHHHHHHhCCCCEEEEEEcCcccc
Confidence            3569999999974332 23445567999999999876555555666777777788875 889999864

>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=95.62  E-value=0.0024  Score=55.05  Aligned_cols=86  Identities=13%  Similarity=0.053  Sum_probs=45.6

Q ss_pred             ccccccccCCchhHHH----cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH------HHHHHHHhcCEEEEE
Q psy2609           2 LCMVSSYMDSRKDEQE----RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS------EVSTAVRLCDGTIIV   71 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~----~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~------~~~~~l~~~d~~ilV   71 (161)
                      |+||+++++.+.....    .+.|.......+.|...-+......+.++||||..+...      ....++...-..++|
T Consensus        48 nvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~~~~~~~~~~~~~fala~llss~lv  127 (592)
T 1f5n_A           48 RTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDSWIFALAVLLSSTFV  127 (592)
T ss_dssp             TSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHHHHHHHHHHHCSEEE
T ss_pred             CCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCcccccchhHHHHHHHHHHHhcCeEE
Confidence            7899999887765431    122222222223331100113356899999999754221      122222221122678


Q ss_pred             EeCCCCCChhHHHHHH
Q psy2609          72 VDCVEGICAQTQVALK   87 (161)
Q Consensus        72 vd~~~~~~~~~~~~~~   87 (161)
                      +|+..++..++..++.
T Consensus       128 ~n~~~~i~~~dl~~l~  143 (592)
T 1f5n_A          128 YNSIGTINQQAMDQLY  143 (592)
T ss_dssp             EEEESCSSHHHHHTTH
T ss_pred             EECCCCccHHHHHHHH
Confidence            8887777776655443

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=95.55  E-value=0.0087  Score=44.57  Aligned_cols=64  Identities=16%  Similarity=0.037  Sum_probs=43.9

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl  105 (161)
                      .+-++++|||+....  .+...+..+|.+++|+......-.....+.+.....+++. .+++||.+.
T Consensus       131 ~yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~  195 (254)
T 3kjh_A          131 KKEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRN  195 (254)
T ss_dssp             CCSEEEEEECTTCTT--CCHHHHTTCSEEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECC
T ss_pred             CCCEEEEeCCCcccH--HHHHHHHHCCEEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCC
Confidence            678999999985433  4567788999999999876322222334444555556664 589999983

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=95.54  E-value=0.04  Score=43.15  Aligned_cols=66  Identities=12%  Similarity=0.208  Sum_probs=48.2

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++|+|||+.-... ........+|.+|+|+.............++.+...+.+++ +|+|++|..
T Consensus       213 ~yD~VIIDtpp~~~~~-d~~~l~~~ad~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~GvVlN~~~~~  279 (299)
T 3cio_A          213 HYDLVIVDTPPMLAVS-DAAVVGRSVGTSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIKR  279 (299)
T ss_dssp             HCSEEEEECCCTTTCT-HHHHHGGGCSEEEEEEETTTSCTTHHHHHHHHHHHTTCCCCCEEEEECCCC
T ss_pred             CCCEEEEcCCCCchhH-HHHHHHHHCCEEEEEEcCCCChHHHHHHHHHHHHhCCCCeEEEEEeCCccC
Confidence            3579999999965422 22334567999999999876655666666777777788876 889999864

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=95.28  E-value=0.049  Score=41.22  Aligned_cols=66  Identities=15%  Similarity=0.177  Sum_probs=42.2

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHH---H---cCCCcE-EEEECCcch
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAW---L---EKIQPI-LVLNKIDRL  106 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~---~---~~~p~i-lv~NK~Dl~  106 (161)
                      ..+-++++|||+....  .+...+..+|.+|+++.............++.+.   .   .+++++ +|+|+.+..
T Consensus       110 ~~yD~iiiD~pp~~~~--~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~~  182 (257)
T 1wcv_1          110 EGYDLVLLDAPPSLSP--LTLNALAAAEGVVVPVQAEYYALEGVAGLLATLEEVRAGLNPRLRLLGILVTMYDGR  182 (257)
T ss_dssp             TTCSEEEEECCSSCCH--HHHHHHHHCSEEEEEEESSTHHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESBCTT
T ss_pred             cCCCEEEEeCCCCCCH--HHHHHHHHCCeEEEEecCchHHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeECCC
Confidence            3678999999996432  3456778899999999876322122222222222   1   256665 899999853

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=95.15  E-value=0.036  Score=42.07  Aligned_cols=63  Identities=13%  Similarity=0.081  Sum_probs=43.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHc--CCCcEEEEECCc
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLE--KIQPILVLNKID  104 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~--~~p~ilv~NK~D  104 (161)
                      .+-++++|||+..  ...+...+..+|.+|+++............+.+.+...  +.++.+|+|++.
T Consensus       144 ~yD~viiD~pp~~--~~~~~~~l~~aD~vivv~~~~~~s~~~~~~~~~~l~~~~~~~~~~vv~N~~~  208 (267)
T 3k9g_A          144 KYDYIVIDTNPSL--DVTLKNALLCSDYVIIPMTAEKWAVESLDLFNFFVRKLNLFLPIFLIITRFK  208 (267)
T ss_dssp             TCSEEEEEECSSC--SHHHHHHHTTCSEEEEEEESCTTHHHHHHHHHHHHHTTTCCCCEEEEEEEEC
T ss_pred             CCCEEEEECcCCc--cHHHHHHHHHCCeEEEEeCCChHHHHHHHHHHHHHHHHhccCCEEEEEeccc
Confidence            5779999999964  33566778889999999988643222233444444443  457789999994

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=95.12  E-value=0.018  Score=43.32  Aligned_cols=65  Identities=17%  Similarity=0.207  Sum_probs=43.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcC---------CCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEK---------IQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~---------~p~ilv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+|+|+.............++.+...+         .+.-+|+|+++..
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~  186 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPEVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPG  186 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSSHHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCChhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCcc
Confidence            57899999998543  46778888999999999875322222233333333222         3456899999854

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=94.88  E-value=0.044  Score=42.27  Aligned_cols=65  Identities=17%  Similarity=0.115  Sum_probs=42.9

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH------cCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL------EKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~------~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++|+|||+....  ....++..+|.+|+++.+...........+..+..      .+++++ +|+|+.|..
T Consensus       154 ~yD~IiiD~pp~~~~--~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~  225 (298)
T 2oze_A          154 DYDLIIIDTVPTPSV--YTNNAIVASDYVMIPLQAEEESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTD  225 (298)
T ss_dssp             GCSEEEEEECSSCSH--HHHHHHHHCSEEEEEECGGGCCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTT
T ss_pred             CCCEEEEECCCCccH--HHHHHHHHCCeEEEEecCcHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCC
Confidence            577999999996443  34556778999999998764333333333333322      356755 889999864

>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=94.76  E-value=0.045  Score=44.32  Aligned_cols=46  Identities=26%  Similarity=0.239  Sum_probs=30.2

Q ss_pred             HHhcCEEEEEEeCCCCCChhHHHHHHH---HHHcCCCcEEEEECCcchhhh
Q psy2609          62 VRLCDGTIIVVDCVEGICAQTQVALKQ---AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        62 l~~~d~~ilVvd~~~~~~~~~~~~~~~---~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..++|.+++|.+..  +......+-++   +...++|.+||+||+||...+
T Consensus       128 ~anvD~v~iv~a~~--P~~~~~~i~r~L~~a~~~~~~~iivlNK~DL~~~~  176 (358)
T 2rcn_A          128 AANIDQIVIVSAIL--PELSLNIIDRYLVGCETLQVEPLIVLNKIDLLDDE  176 (358)
T ss_dssp             EECCCEEEEEEEST--TTCCHHHHHHHHHHHHHHTCEEEEEEECGGGCCHH
T ss_pred             HhcCCEEEEEEeCC--CCCCHHHHHHHHHHHHhcCCCEEEEEECccCCCch
Confidence            56789999876543  22222233333   345689999999999997543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.33  E-value=0.17  Score=40.03  Aligned_cols=64  Identities=17%  Similarity=0.343  Sum_probs=37.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHH-------HHH-----hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVST-------AVR-----LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~-------~l~-----~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++|+||||..........       .+.     .+|.+++|+++..+  .......+.. ....++. +++||+|..
T Consensus       191 ~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~--~~~l~~~~~~-~~~~~i~GvVltk~d~~  267 (320)
T 1zu4_A          191 NYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG--QNGVIQAEEF-SKVADVSGIILTKMDST  267 (320)
T ss_dssp             TCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT--HHHHHHHHHH-TTTSCCCEEEEECGGGC
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc--HHHHHHHHHH-hhcCCCcEEEEeCCCCC
Confidence            578999999997543221111       111     26899999998743  2222222211 1234443 789999964

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.13  E-value=0.047  Score=40.56  Aligned_cols=65  Identities=17%  Similarity=0.020  Sum_probs=43.4

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCC---CcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKI---QPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~---p~ilv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+++|+.............++.+...+.   ++-+|+|+++..
T Consensus       118 ~yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~  185 (245)
T 3ea0_A          118 FYDYIIVDFGASID--HVGVWVLEHLDELCIVTTPSLQSLRRAGQLLKLCKEFEKPISRIEIILNRADTN  185 (245)
T ss_dssp             HCSEEEEEEESSCC--TTHHHHGGGCSEEEEEECSSHHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSC
T ss_pred             hCCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecCcHHHHHHHHHHHHHHHHhCCCccceEEEEecCCCC
Confidence            46799999998643  245667889999999998763222333444455544442   245899999853

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.02  E-value=0.14  Score=42.28  Aligned_cols=64  Identities=25%  Similarity=0.322  Sum_probs=37.4

Q ss_pred             ceeEEEEeCCCchhh----HHHHH--HHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCC-cEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDF----SSEVS--TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQ-PILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~--~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~  106 (161)
                      .+-++|+||||....    .....  ...-.+|.+++|+|+..+  ........... ..++ .-+++||+|..
T Consensus       180 ~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tg--q~av~~a~~f~-~~l~i~GVIlTKlD~~  250 (425)
T 2ffh_A          180 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFD-EKVGVTGLVLTKLDGD  250 (425)
T ss_dssp             TCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHH-HHTCCCEEEEESGGGC
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccch--HHHHHHHHHHH-hcCCceEEEEeCcCCc
Confidence            567999999996432    22211  112247899999998754  22222222222 2355 45789999963

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=93.88  E-value=0.022  Score=44.00  Aligned_cols=34  Identities=26%  Similarity=0.193  Sum_probs=28.4

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|+|||+..  ...+...+..+|.+|+++...
T Consensus       103 ~yD~viiD~p~~~--~~~~~~~l~~aD~viiv~~~~  136 (286)
T 2xj4_A          103 ECDFILIDTPGGD--SAITRMAHGRADLVVTPMNDS  136 (286)
T ss_dssp             HCSEEEEECCSSC--CHHHHHHHHTCSEEEEEEESS
T ss_pred             cCCEEEEcCCCCc--cHHHHHHHHHCCEEEEEEcCC
Confidence            4679999999974  456778899999999999875

>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=92.63  E-value=0.015  Score=45.33  Aligned_cols=41  Identities=20%  Similarity=0.290  Sum_probs=21.8

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV   52 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~   52 (161)
                      |+||+++++.+..+      ..+|+|.......   .       ...+.+|||||..
T Consensus       130 nvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~---~-------~~~~~l~DtpG~~  176 (282)
T 1puj_A          130 NVGKSTLINRLAKKNIAKTGDRPGITTSQQWVK---V-------GKELELLDTPGIL  176 (282)
T ss_dssp             TSSHHHHHHHHHTSCCC------------CCEE---E-------TTTEEEEECCCCC
T ss_pred             CCchHHHHHHHhcCceeecCCCCCeeeeeEEEE---e-------CCCEEEEECcCcC
Confidence            78999998766433      3456665543211   1       2378999999974

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=91.73  E-value=0.43  Score=34.80  Aligned_cols=66  Identities=15%  Similarity=0.024  Sum_probs=37.7

Q ss_pred             ceeEEEEeCCCchhh--H--HHHHHHHHhc-CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcc
Q psy2609          40 EYLINLIDSPGHVDF--S--SEVSTAVRLC-DGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~--~--~~~~~~l~~~-d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl  105 (161)
                      .+-+.++||||.-..  .  .......... +.+++|+....+........++.+...+++++ +|+|++|.
T Consensus       108 ~yD~viID~p~~l~~p~~~~~~~~~l~~~~~~~vi~v~~~~~~~~~~~~~~i~~l~~~~~~i~gvvlN~~~~  179 (224)
T 1byi_A          108 QADWVLVEGAGGWFTPLSDTFTFADWVTQEQLPVILVVGVKLGCINHAMLTAQVIQHAGLTLAGWVANDVTP  179 (224)
T ss_dssp             TCSEEEEECSSSTTCEEETTEEHHHHHHHHTCCEEEEEECSTTHHHHHHHHHHHHHHTTCCEEEEEEECCSS
T ss_pred             hCCEEEEEcCCccccCCCcchhHHHHHHHhCCCEEEEecCCCCcHHHHHHHHHHHHHCCCcEEEEEEeCCCC
Confidence            578999999975321  0  0111222222 34777887753222333444455556678866 78999985

>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=91.71  E-value=0.56  Score=36.88  Aligned_cols=64  Identities=20%  Similarity=0.288  Sum_probs=35.2

Q ss_pred             ceeEEEEeCCCchhhHHH----H---HHHHH-----hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSE----V---STAVR-----LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~----~---~~~l~-----~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+.+.++||||.......    .   ...+.     ..+.+++|+|+..+  .......+.... ..++ -+++||+|-.
T Consensus       186 ~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~~a~~~~~-~~~i~gvVlTk~D~~  262 (306)
T 1vma_A          186 NKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKE-AVNVTGIILTKLDGT  262 (306)
T ss_dssp             TCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHH-HSCCCEEEEECGGGC
T ss_pred             CCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHHHHHHHHh-cCCCCEEEEeCCCCc
Confidence            457999999996332221    1   11221     26788999998732  112222222222 2443 4778999964

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=91.68  E-value=0.49  Score=36.82  Aligned_cols=64  Identities=23%  Similarity=0.278  Sum_probs=36.6

Q ss_pred             ceeEEEEeCCCchhh----HHHHHHHH--HhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDF----SSEVSTAV--RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~~~l--~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~  106 (161)
                      .+.+.++||||....    ........  -.++.+++|+|+..+  .......+... ..+++ -+++||+|..
T Consensus       180 ~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~~--~~~~~~~~~~~-~~~~i~givlnk~d~~  250 (295)
T 1ls1_A          180 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTG--QEALSVARAFD-EKVGVTGLVLTKLDGD  250 (295)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGT--HHHHHHHHHHH-HHTCCCEEEEECGGGC
T ss_pred             CCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCCc--HHHHHHHHHHh-hcCCCCEEEEECCCCC
Confidence            568999999985322    22221111  247888999998743  22222222222 23554 4789999964

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=91.45  E-value=0.28  Score=42.16  Aligned_cols=67  Identities=19%  Similarity=0.165  Sum_probs=40.9

Q ss_pred             eEEEEeCCCchh-------------hHHHHHHHHHhc-CEEEEEEeCCCCCCh-hHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          42 LINLIDSPGHVD-------------FSSEVSTAVRLC-DGTIIVVDCVEGICA-QTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        42 ~i~iiDTpG~~~-------------~~~~~~~~l~~~-d~~ilVvd~~~~~~~-~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+.++|.||+.+             +...+..++... ..++++++++..... ....+++.+...+.+.|+|+||.|+.
T Consensus       148 ~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~~d~a~~~~l~la~~v~~~g~rtI~VlTK~Dlv  227 (608)
T 3szr_A          148 DLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNVDIATTEALSMAQEVDPEGDRTIGILTKPDLV  227 (608)
T ss_dssp             CEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESSSCTTTCHHHHHHHHHCSSCCSEEEEEECGGGS
T ss_pred             ceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEeccchhccHHHHHHHHHHhhcCCceEEEecchhhc
Confidence            599999998532             233344444443 456666666544332 23445555555678999999999987


Q ss_pred             hh
Q psy2609         107 IL  108 (161)
Q Consensus       107 ~~  108 (161)
                      ..
T Consensus       228 ~~  229 (608)
T 3szr_A          228 DK  229 (608)
T ss_dssp             SS
T ss_pred             Cc
Confidence            43

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=90.65  E-value=0.1  Score=38.14  Aligned_cols=60  Identities=20%  Similarity=0.174  Sum_probs=31.2

Q ss_pred             eEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          42 LINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.++||+|.-....   +.-...+..+.|+|+..+...... .   ....+.|.++|+||+|+...
T Consensus       120 d~~~id~~g~i~~~~---s~~~~~~~~~~v~~~~~~~~~~~~-~---~~~~~~~~iiv~NK~Dl~~~  179 (226)
T 2hf9_A          120 DLLFIENVGNLICPA---DFDLGTHKRIVVISTTEGDDTIEK-H---PGIMKTADLIVINKIDLADA  179 (226)
T ss_dssp             SEEEEECCSCSSGGG---GCCCSCSEEEEEEEGGGCTTTTTT-C---HHHHTTCSEEEEECGGGHHH
T ss_pred             CEEEEeCCCCccCcc---hhhhccCcEEEEEecCcchhhHhh-h---hhHhhcCCEEEEeccccCch
Confidence            577777777311000   000123456677775432211110 0   11136899999999999753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=89.94  E-value=0.023  Score=43.77  Aligned_cols=42  Identities=21%  Similarity=0.233  Sum_probs=23.0

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD   53 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~   53 (161)
                      |+|||++++.+..+      ..+|+|......   ..       ...+.+|||||...
T Consensus       109 ~vGKSslin~l~~~~~~~~~~~~g~T~~~~~~---~~-------~~~~~l~DtpG~~~  156 (262)
T 3cnl_A          109 NTGKSTIINKLKGKRASSVGAQPGITKGIQWF---SL-------ENGVKILDTPGILY  156 (262)
T ss_dssp             TSSHHHHHHHHHTTCC----------CCSCEE---EC-------TTSCEEESSCEECC
T ss_pred             CCCHHHHHHHHhcccccccCCCCCCccceEEE---Ee-------CCCEEEEECCCccc
Confidence            68999998765432      234555443211   11       23789999999754

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=89.35  E-value=0.72  Score=36.70  Aligned_cols=42  Identities=17%  Similarity=-0.025  Sum_probs=30.3

Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+++++|.-............+..+...++|+. +|+|++...
T Consensus       237 ~~~~vlV~~p~~~~~~e~~r~~~~l~~~~i~v~gvV~N~~~~~  279 (349)
T 3ug7_A          237 RTAFRLVVIPEEMSILESERAMKALQKYGIPIDAVIVNQLIPE  279 (349)
T ss_dssp             TEEEEEEECSSHHHHHHHHHHHHHHHHTTCCEEEEEEEEECCS
T ss_pred             CceEEEEECCCccHHHHHHHHHHHHHHCCCCeeEEEEcCCccc
Confidence            367888886654334555667777888899996 889998754

>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=89.33  E-value=0.29  Score=40.70  Aligned_cols=48  Identities=15%  Similarity=0.156  Sum_probs=27.0

Q ss_pred             CCCceeEEEEeCCCchhhHH-----HHHHHHHh--cCEEEEEEeCCCCCChhHHHHH
Q psy2609          37 TPEEYLINLIDSPGHVDFSS-----EVSTAVRL--CDGTIIVVDCVEGICAQTQVAL   86 (161)
Q Consensus        37 ~~~~~~i~iiDTpG~~~~~~-----~~~~~l~~--~d~~ilVvd~~~~~~~~~~~~~   86 (161)
                      ++...++.|+||||..+-..     ....++..  ++..|+-.  ...+.......+
T Consensus       136 ~~~~~~vvllDTeG~~~~~~~~~~d~~ifal~~lLSs~~IyN~--~~~i~~~~l~~L  190 (447)
T 3q5d_A          136 DGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNL--SQNVQEDDLQHL  190 (447)
T ss_dssp             SSCEEEEEEEEEECCCSSHHHHHHHHHHHHHHHHHCSEEEEEE--SSSCCHHHHHHH
T ss_pred             CCCcceEEEEcCCcccccccchhhhHHHHHHHHHHhhHHHHhh--cccccHHHHHHH
Confidence            35568999999999754332     22233333  66555544  444555444443

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=87.24  E-value=0.37  Score=36.28  Aligned_cols=66  Identities=11%  Similarity=-0.077  Sum_probs=37.1

Q ss_pred             ceeEEEEeCCCchhhHHH-HHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH----cCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSE-VSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL----EKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~-~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~----~~~p~-ilv~NK~Dl  105 (161)
                      .+-++++||||....... .......+|.+++++......-......++.+..    .++++ -+|+|+.+.
T Consensus       115 ~yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~  186 (269)
T 1cp2_A          115 DLDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKV  186 (269)
T ss_dssp             TCSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECSSHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSS
T ss_pred             CCCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecCchhhHHHHHHHHHHHHHHHhcCCCcEEEEEeecCCc
Confidence            578999999995322111 1122246999999998752111112222333332    24565 478999863

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=87.07  E-value=0.69  Score=37.31  Aligned_cols=34  Identities=18%  Similarity=0.190  Sum_probs=27.7

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|+|||+.-.  ..+..++..+|.+|+|+...
T Consensus       247 ~yD~VIID~pP~~~--~~~~~al~~aD~vliv~~p~  280 (403)
T 3ez9_A          247 DYDFIFIDTGPHLD--PFLLNGLAASDLLLTPTPPA  280 (403)
T ss_dssp             GCSEEEEEECSSCS--HHHHHHHHHCSEEEEEECSS
T ss_pred             cCCEEEEECCCCcc--HHHHHHHHHCCEEEEEecCc
Confidence            57799999998654  45677888999999999764

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=86.92  E-value=0.32  Score=37.24  Aligned_cols=66  Identities=12%  Similarity=-0.029  Sum_probs=36.8

Q ss_pred             ceeEEEEeCCCchhhHHH-HHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH----cCCCc-EEEEECCcc
Q psy2609          40 EYLINLIDSPGHVDFSSE-VSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL----EKIQP-ILVLNKIDR  105 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~-~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~----~~~p~-ilv~NK~Dl  105 (161)
                      .+-++++||||....... .......+|.+++++......-......++.+..    .+.++ -+|+|+.+.
T Consensus       118 ~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~  189 (289)
T 2afh_E          118 DLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSGEMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNT  189 (289)
T ss_dssp             TCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECSSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCC
T ss_pred             CCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecCCHHHHHHHHHHHHHHHHHHhcCCCceEEEEEecCCc
Confidence            678999999995321111 1222357999999997652111111222233322    25664 378999863

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=86.60  E-value=1  Score=35.90  Aligned_cols=41  Identities=7%  Similarity=-0.085  Sum_probs=29.6

Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCc
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKID  104 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~D  104 (161)
                      .++.+++|.......-......+..+...++|+. +|+|++.
T Consensus       234 ~~~~~vlV~~pe~~si~ea~r~~~~L~~~g~~~~gvVvN~v~  275 (354)
T 2woj_A          234 DLTTFVCVCISEFLSLYETERLIQELISYDMDVNSIIVNQLL  275 (354)
T ss_dssp             TTEEEEEEEESSHHHHHHHHHHHHHHHHTTCCEEEEEEEEEC
T ss_pred             CCcEEEEEeCCCcchHHHHHHHHHHHHHcCCCCCEEEEecCC
Confidence            4688899987653333445566677777888886 8899987

>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=85.88  E-value=1.1  Score=36.84  Aligned_cols=63  Identities=19%  Similarity=0.051  Sum_probs=42.8

Q ss_pred             eEEEEeCCCchhhHHHHHHH-----HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          42 LINLIDSPGHVDFSSEVSTA-----VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        42 ~i~iiDTpG~~~~~~~~~~~-----l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.++|+||+..-......+     +...+..++ ++... ...+...+.+.+...+.|+++|.||.|+.
T Consensus       121 ~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~-~~kqrv~la~aL~~~~~p~~lV~tkpdll  188 (413)
T 1tq4_A          121 NVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-ISATR-FKKNDIDIAKAISMMKKEFYFVRTKVDSD  188 (413)
T ss_dssp             TEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EESSC-CCHHHHHHHHHHHHTTCEEEEEECCHHHH
T ss_pred             CeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eCCCC-ccHHHHHHHHHHHhcCCCeEEEEecCccc
Confidence            68999999974311112222     333455554 77654 45667777777777889999999999986

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=85.76  E-value=1.3  Score=34.63  Aligned_cols=41  Identities=17%  Similarity=0.016  Sum_probs=29.5

Q ss_pred             CEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          66 DGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        66 d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      +++++|.-............+..+...++|+. +|+|++.-.
T Consensus       223 ~~~vlV~~p~~~~~~~~~~~~~~l~~~gi~v~gvV~N~~~~~  264 (324)
T 3zq6_A          223 TSFKMVVIPEEMSIYESERAMKALEKYSIHADGVIVNQVLPE  264 (324)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHHHHHHTTCCEEEEEEEEECCS
T ss_pred             CeEEEEeCCcccHHHHHHHHHHHHHHCCCCccEEEEcCCccc
Confidence            48888886654334555666777888899996 889998653

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=85.23  E-value=0.9  Score=36.22  Aligned_cols=34  Identities=15%  Similarity=0.133  Sum_probs=27.6

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .+-++|||||..-  ......++..+|.+|+++.+.
T Consensus       153 ~yD~VIID~pP~l--~~~~~~aL~~aD~viip~~~~  186 (361)
T 3pg5_A          153 RYDVIFFDVGPSL--GPFNRTVLLGCDAFVTPTATD  186 (361)
T ss_dssp             CCSEEEEECCSCC--SHHHHHHHTTCSEEEEEECCS
T ss_pred             CCCEEEEECCCCc--CHHHHHHHHHCCEEEEEecCC
Confidence            5789999999753  355677788899999999876

>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=84.60  E-value=0.92  Score=35.33  Aligned_cols=63  Identities=13%  Similarity=0.124  Sum_probs=35.3

Q ss_pred             ceeEEEEeCCCchhhHHH----HHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHc-CCCc-EEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSE----VSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLE-KIQP-ILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~----~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~-~~p~-ilv~NK~Dl~  106 (161)
                      .+.+.|+||||.......    ....+.  ..+.+++|+|++.+.  .  .+.+.+... .++. -++.||+|..
T Consensus       182 ~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~~--~--~~~~~~~~~~~l~~~giVltk~D~~  252 (296)
T 2px0_A          182 EYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKY--E--DMKHIVKRFSSVPVNQYIFTKIDET  252 (296)
T ss_dssp             GSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBCH--H--HHHHHTTTTSSSCCCEEEEECTTTC
T ss_pred             CCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCCH--H--HHHHHHHHHhcCCCCEEEEeCCCcc
Confidence            568999999997543221    222222  256789999987432  1  122222221 2232 4677999965

>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=83.85  E-value=4.1  Score=34.35  Aligned_cols=65  Identities=14%  Similarity=0.179  Sum_probs=35.0

Q ss_pred             ceeEEEEeCCCchh----hHHH---HHHHHH-----hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSE---VSTAVR-----LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~---~~~~l~-----~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.+.++||+|...    +...   .....+     ..+-++||+|++.|-  .....++.....--.-.+++||+|-.
T Consensus       375 ~~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq--~al~~ak~f~~~~~itgvIlTKLD~t  451 (503)
T 2yhs_A          375 NIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQ--NAVSQAKLFHEAVGLTGITLTKLDGT  451 (503)
T ss_dssp             TCSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTH--HHHHHHHHHHHHTCCSEEEEECGGGC
T ss_pred             CCCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccH--HHHHHHHHHHhhcCCCEEEEEcCCCc
Confidence            45689999999632    1111   111222     135789999987542  22222222222111236789999963

>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=83.61  E-value=1.9  Score=34.06  Aligned_cols=64  Identities=22%  Similarity=0.190  Sum_probs=36.4

Q ss_pred             eeEEEEeCCCchh----hHHHHHHH--HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          41 YLINLIDSPGHVD----FSSEVSTA--VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        41 ~~i~iiDTpG~~~----~~~~~~~~--l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      +.+.++||+|...    +.......  .-..|-.++++|+..+  .+....++.....--.-++++||+|-.
T Consensus       212 ~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~--~~~~~~~~~~~~~~~it~iilTKlD~~  281 (328)
T 3e70_C          212 IDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAG--NAIVEQARQFNEAVKIDGIILTKLDAD  281 (328)
T ss_dssp             CSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGT--THHHHHHHHHHHHSCCCEEEEECGGGC
T ss_pred             chhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHH--HHHHHHHHHHHHhcCCCEEEEeCcCCc
Confidence            4578899999632    22222211  1136889999998754  222233333322222347889999963

---

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	161
d1n0ua2	341	c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-	1e-25
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	2e-22
d2bv3a2	276	c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-t	6e-20
d1f60a3	239	c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N	3e-16
d1jnya3	224	c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N	1e-15
d1d2ea3	196	c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu),	2e-14
d1zunb3	222	c.37.1.8 (B:16-237) Sulfate adenylate transferase	3e-08
d1yrba1	244	c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB09	4e-04
d1g7sa4	227	c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-	7e-04

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 341

class: 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]

 Score = 97.5 bits (242), Expect = 1e-25
 Identities = 66/134 (49%), Positives = 99/134 (73%), Gaps = 9/134 (6%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDN---------KDTPEEYLINLIDSPGHVDFSSEV 58
           + D+RKDEQERGIT+KS++ISLY + +         K     +LINLIDSPGHVDFSSEV
Sbjct: 54  FTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEV 113

Query: 59  STAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIY 118
           + A+R+ DG ++VVD +EG+C QT+  L+QA  E+I+P++V+NK+DR +LE+++S  D+Y
Sbjct: 114 TAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLY 173

Query: 119 VHLSQLLEQVNAVM 132
              ++ +E VN ++
Sbjct: 174 QTFARTVESVNVIV 187

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

class: 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]

 Score = 86.9 bits (215), Expect = 2e-22
 Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 10/146 (6%)

Query: 13  KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVV 72
            +E+ RGIT+ ++ +                + +D PGH D+   + T     DG I+VV
Sbjct: 46  PEERARGITINTAHVEYETAKRH-------YSHVDCPGHADYIKNMITGAAQMDGAILVV 98

Query: 73  DCVEGICAQTQVALKQAWLEKIQPIL-VLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAV 131
              +G   QT+  +  A    +  I+  +NK+D +     L    + + +  LL Q    
Sbjct: 99  SAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLD--LVEMEVRDLLNQYEFP 156

Query: 132 MGELFASQVMDETAVKTTAQDNETKQ 157
             E+   +     A++   ++ +T++
Sbjct: 157 GDEVPVIRGSALLALEQMHRNPKTRR 182

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 276

class: 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]

 Score = 81.7 bits (201), Expect = 6e-20
 Identities = 39/115 (33%), Positives = 66/115 (57%), Gaps = 7/115 (6%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            MD  + E+ERGIT+ ++  + ++KD       + IN+ID+PGHVDF+ EV  ++R+ DG
Sbjct: 45  TMDFMEQERERGITITAAVTTCFWKD-------HRINIIDAPGHVDFTIEVERSMRVLDG 97

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLS 122
            I+V D  +G+  Q++   +QA   K+  I   NK+D+   ++ L    +   L 
Sbjct: 98  AIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLG 152

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239

class: 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]

 Score = 71.2 bits (174), Expect = 3e-16
 Identities = 27/106 (25%), Positives = 46/106 (43%), Gaps = 15/106 (14%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  K E+ERGIT+  +               Y + +ID+PGH DF   + T     D 
Sbjct: 58  VLDKLKAERERGITIDIALWKFETPK-------YQVTVIDAPGHRDFIKNMITGTSQADC 110

Query: 68  TIIVVDCVEGIC-------AQTQVALKQAWLEKIQPILV-LNKIDR 105
            I+++    G          QT+     A+   ++ ++V +NK+D 
Sbjct: 111 AILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDS 156

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 224

class: 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]

 Score = 69.1 bits (168), Expect = 1e-15
 Identities = 29/114 (25%), Positives = 47/114 (41%), Gaps = 9/114 (7%)

Query: 3   CMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAV 62
              +  +D  K+E+ERG+T+  + +    K        Y   +ID+PGH DF   + T  
Sbjct: 50  EKFAFLLDRLKEERERGVTINLTFMRFETKK-------YFFTIIDAPGHRDFVKNMITGA 102

Query: 63  RLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLD 116
              D  I+VV   +G          Q   E I     +  +D+LI+ +    L 
Sbjct: 103 SQADAAILVVSAKKGEYEAGMSVEGQTR-EHIILAKTMG-LDQLIVAVNKMDLT 154

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]} Length = 196

class: 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]

 Score = 65.4 bits (159), Expect = 2e-14
 Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 8/98 (8%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D+  +E+ RGIT+ ++ +                   D PGH D+   + T     DG
Sbjct: 40  EIDNAPEERARGITINAAHVEYSTAARH-------YAHTDCPGHADYVKNMITGTAPLDG 92

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILV-LNKID 104
            I+VV   +G   QT+  L  A    ++ ++V +NK D
Sbjct: 93  CILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKAD 130

>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]} Length = 222

class: 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]

 Score = 49.1 bits (116), Expect = 3e-08
 Identities = 28/127 (22%), Positives = 48/127 (37%), Gaps = 7/127 (5%)

Query: 8   YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG 67
            +D  + E+E+GIT+  +                   + D+PGH  ++  ++T    CD 
Sbjct: 63  LVDGLQAEREQGITIDVAYRYFSTAK-------RKFIIADTPGHEQYTRNMATGASTCDL 115

Query: 68  TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQ 127
            II+VD   G+  QT+     A L  I+ I+V      L    +     I     +  E 
Sbjct: 116 AIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEG 175

Query: 128 VNAVMGE 134
           +      
Sbjct: 176 IAFKPTT 182

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]} Length = 244

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]

 Score = 36.9 bits (84), Expect = 4e-04
 Identities = 22/117 (18%), Positives = 35/117 (29%), Gaps = 10/117 (8%)

Query: 24  SSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDG-----TIIVVDCVEGI 78
               + Y        +E    LID+PG ++        VRL +       + + D     
Sbjct: 78  MEKFNEYLNKILRLEKENDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILK 137

Query: 79  CAQTQ-----VALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNA 130
                      AL          I  LNK+D L  E K      +  +  L  ++  
Sbjct: 138 KPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEKERHRKYFEDIDYLTARLKL 194

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 227

class: 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]

 Score = 36.2 bits (82), Expect = 7e-04
 Identities = 21/72 (29%), Positives = 30/72 (41%)

Query: 49  PGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL 108
           PGH  F++       L D  I++VD  EG   QTQ AL    + +   ++  NKIDR+  
Sbjct: 78  PGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHG 137

Query: 109 EMKLSPLDIYVH 120
                       
Sbjct: 138 WRVHEGRPFMET 149

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	161
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.91
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.9
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.87
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.85
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.85
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.85
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.81
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.77
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.77
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.75
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.72
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.7
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.67
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.59
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.5
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.49
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.48
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.47
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.46
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.45
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.42
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.42
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.41
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.41
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.41
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.39
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.38
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.37
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.36
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.36
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.36
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.36
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.35
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.35
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.35
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.34
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.34
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.34
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.33
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.33
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.32
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.31
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.3
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.28
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.28
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.27
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.27
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.27
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.26
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.25
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.25
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.24
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.23
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.23
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.22
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.21
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.21
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.21
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.2
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.19
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.15
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.12
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.09
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.08
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.04
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.04
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.93
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.91
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.76
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.75
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.62
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.6
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.51
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.36
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.33
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.27
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.22
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.03
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.02
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.39
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.24
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.66
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	96.21
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.18
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	95.94
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.85
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	95.16
d1okkd2	207	GTPase domain of the signal recognition particle r	93.39
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	93.22
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	93.21
d1vmaa2	213	GTPase domain of the signal recognition particle r	92.49
d2qy9a2	211	GTPase domain of the signal recognition particle r	92.38
d1ls1a2	207	GTPase domain of the signal sequence recognition p	91.66
d1j8yf2	211	GTPase domain of the signal sequence recognition p	89.88
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	86.22
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	84.56

>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=99.91  E-value=1.9e-24  Score=162.37  Aligned_cols=92  Identities=26%  Similarity=0.433  Sum_probs=85.8

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|..++|++||+|++....++.|+       +++++|+|||||.+|.+.+..+++.+|++|+|+|+.+|+..|+.++|..
T Consensus        42 ~d~~~eE~~rgiTi~~~~~~~~~~-------~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~  114 (204)
T d2c78a3          42 IDKAPEERARGITINTAHVEYETA-------KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILL  114 (204)
T ss_dssp             HSCSHHHHHHTCCCSCEEEEEECS-------SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHH
T ss_pred             cccchHHhcCCeEEEeeEEEEEeC-------CeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHH
Confidence            377799999999999999999888       7799999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCc-EEEEECCcchh
Q psy2609          89 AWLEKIQP-ILVLNKIDRLI  107 (161)
Q Consensus        89 ~~~~~~p~-ilv~NK~Dl~~  107 (161)
                      +...++|. |+++||||+..
T Consensus       115 ~~~~gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3         115 ARQVGVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             HHHTTCCCEEEEEECGGGCC
T ss_pred             HHHcCCCeEEEEEEecccCC
Confidence            99999985 56799999865

>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=99.90  E-value=5.5e-24  Score=170.93  Aligned_cols=133  Identities=50%  Similarity=0.835  Sum_probs=106.3

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecC---------CCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDN---------KDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~---------~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVv   72 (161)
                      .+|+.+++|..++|++||+|++....++.|...         ...++.+.++|+|||||.+|..++..+++.+|+|++|+
T Consensus        48 ~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVV  127 (341)
T d1n0ua2          48 KAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVV  127 (341)
T ss_dssp             -----------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEE
T ss_pred             ccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEE
Confidence            356778889999999999999999999877421         12356789999999999999999999999999999999


Q ss_pred             eCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhh
Q psy2609          73 DCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGE  134 (161)
Q Consensus        73 d~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  134 (161)
                      |+.+|+..+++.+++++...++|+++|+||+|+...+....+.++|.++...++.++..++.
T Consensus       128 da~eGv~~qT~~~~~~a~~~~~p~i~viNKiDr~~~el~~~~~~~~~~l~~~i~~vn~~i~~  189 (341)
T d1n0ua2         128 DTIEGVCVQTETVLRQALGERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIVST  189 (341)
T ss_dssp             ETTTBSCHHHHHHHHHHHHTTCEEEEEEECHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccCcchhHHHHHHHHHHcCCCeEEEEECcccccccHHhhHHHHHHHHcCccccccceeee
Confidence            99999999999999999999999999999999999999999999999999999999888775

>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=99.87  E-value=1.3e-22  Score=158.57  Aligned_cols=98  Identities=37%  Similarity=0.588  Sum_probs=82.9

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      +++++|..++|++||+|+.+...++.|+       +++++|+|||||.+|...+..+++.+|++|+|+|+.+|+..+++.
T Consensus        42 ~~~~~D~~~~E~~r~~si~~~~~~~~~~-------~~~~n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~  114 (276)
T d2bv3a2          42 GAATMDFMEQERERGITITAAVTTCFWK-------DHRINIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSET  114 (276)
T ss_dssp             -------------CCCCCCCSEEEEEET-------TEEEEEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHH
T ss_pred             CceEEeccHHHHhcCCccccceeeeccC-------CeEEEEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHH
Confidence            3578999999999999999999999999       889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +|+++...++|.|+++||||+...+
T Consensus       115 ~w~~a~~~~lP~i~fINKmDr~~ad  139 (276)
T d2bv3a2         115 VWRQAEKYKVPRIAFANKMDKTGAD  139 (276)
T ss_dssp             HHHHHHTTTCCEEEEEECTTSTTCC
T ss_pred             HHHHHHHcCCCEEEEEecccccccc
Confidence            9999999999999999999998776

>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=99.85  E-value=3.6e-21  Score=149.76  Aligned_cols=95  Identities=21%  Similarity=0.321  Sum_probs=91.1

Q ss_pred             cccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHH
Q psy2609           5 VSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQV   84 (161)
Q Consensus         5 ~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~   84 (161)
                      .++++|..++|++||+|+.....++.|+       +++++|||||||.+|...+..+++.+|++|+|+|+.+|+..+++.
T Consensus        38 g~~~~D~~~~E~~r~~ti~~~~~~~~~~-------~~~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~  110 (267)
T d2dy1a2          38 GTTTTDYTPEAKLHRTTVRTGVAPLLFR-------GHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTER  110 (267)
T ss_dssp             TCCSSCCSHHHHHTTSCCSCEEEEEEET-------TEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHH
T ss_pred             ccccccchHHHHHhCCeEEeeccccccc-------ccceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHH
Confidence            4677899999999999999999999998       789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCcEEEEECCcch
Q psy2609          85 ALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        85 ~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      +|+.+...++|.++++||+|..
T Consensus       111 ~~~~~~~~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2         111 AWTVAERLGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHTTCCEEEEEECGGGC
T ss_pred             HHHhhhhccccccccccccccc
Confidence            9999999999999999999974

>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=99.85  E-value=8.7e-22  Score=151.09  Aligned_cols=96  Identities=28%  Similarity=0.408  Sum_probs=87.5

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC-------CC
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG-------IC   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~-------~~   79 (161)
                      |++|.+++|++||+|++....++.|.       +++++|+|||||.+|...+.++++.+|++|+|+|+.+|       +.
T Consensus        57 ~~~D~~~~Er~rGiTi~~~~~~~~~~-------~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~  129 (239)
T d1f60a3          57 WVLDKLKAERERGITIDIALWKFETP-------KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKD  129 (239)
T ss_dssp             HHHHHHHHHHHTTCCCSCSCEEEECS-------SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTT
T ss_pred             eecccchhhhcceeccccceeEeccC-------CEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCch
Confidence            55689999999999999999999988       89999999999999999999999999999999999976       45


Q ss_pred             hhHHHHHHHHHHcCCCc-EEEEECCcchhhh
Q psy2609          80 AQTQVALKQAWLEKIQP-ILVLNKIDRLILE  109 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~  109 (161)
                      .|+.+++..+...++|. |+++||||+...+
T Consensus       130 ~QT~eh~~~~~~~gv~~iiv~iNKmD~~~~d  160 (239)
T d1f60a3         130 GQTREHALLAFTLGVRQLIVAVNKMDSVKWD  160 (239)
T ss_dssp             SHHHHHHHHHHHTTCCEEEEEEECGGGGTTC
T ss_pred             HhHHHHHHHHHHcCCCeEEEEEECCCCCCCC
Confidence            78999999999999985 6789999998644

>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=99.85  E-value=5.6e-22  Score=147.99  Aligned_cols=92  Identities=27%  Similarity=0.400  Sum_probs=82.8

Q ss_pred             cCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHH
Q psy2609           9 MDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQ   88 (161)
Q Consensus         9 ~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~   88 (161)
                      +|..++|+++|+|++.....+.|.       .++++++|||||.+|.+.+.++++.+|++|+|+|+.+|+..|+.+++.+
T Consensus        41 ~~~~~~Er~rgiTi~~~~~~~~~~-------~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~  113 (196)
T d1d2ea3          41 IDNAPEERARGITINAAHVEYSTA-------ARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLL  113 (196)
T ss_dssp             HHSCCEEEETTEEEECEEEEEECS-------SCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHH
T ss_pred             cccchhhcCCCccCCcceEEEEec-------eeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHH
Confidence            345678999999999888888776       7899999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCC-cEEEEECCcchh
Q psy2609          89 AWLEKIQ-PILVLNKIDRLI  107 (161)
Q Consensus        89 ~~~~~~p-~ilv~NK~Dl~~  107 (161)
                      +...+++ +|+|+||+|+..
T Consensus       114 a~~~~~~~iIv~iNK~D~~~  133 (196)
T d1d2ea3         114 ARQIGVEHVVVYVNKADAVQ  133 (196)
T ss_dssp             HHHTTCCCEEEEEECGGGCS
T ss_pred             HHHhcCCcEEEEEecccccc
Confidence            9887774 677899999874

>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=99.81  E-value=2.1e-20  Score=141.85  Aligned_cols=90  Identities=28%  Similarity=0.371  Sum_probs=77.5

Q ss_pred             chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHH
Q psy2609          12 RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWL   91 (161)
Q Consensus        12 ~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~   91 (161)
                      .++|+++|+|++.....+.+.       +++++|+|||||++|...+..++..+|++++|+|+.+|+..|+.+++..+..
T Consensus        67 ~~~e~~~g~ti~~~~~~~~~~-------~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~  139 (222)
T d1zunb3          67 LQAEREQGITIDVAYRYFSTA-------KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASL  139 (222)
T ss_dssp             HHC-----CCCCCEEEEEECS-------SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHH
T ss_pred             chhhhccCCCceeeEEEEecc-------ceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHH
Confidence            367889999999887777766       7899999999999999999999999999999999999999999999999999


Q ss_pred             cCCC-cEEEEECCcchhh
Q psy2609          92 EKIQ-PILVLNKIDRLIL  108 (161)
Q Consensus        92 ~~~p-~ilv~NK~Dl~~~  108 (161)
                      .++| +|+++||||+...
T Consensus       140 ~gv~~iiv~vNK~D~~~~  157 (222)
T d1zunb3         140 LGIKHIVVAINKMDLNGF  157 (222)
T ss_dssp             TTCCEEEEEEECTTTTTS
T ss_pred             cCCCEEEEEEEccccccc
Confidence            9988 5689999999764

>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=99.77  E-value=6e-20  Score=134.19  Aligned_cols=136  Identities=24%  Similarity=0.215  Sum_probs=94.5

Q ss_pred             ccccccccCCc------------hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSR------------KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~------------~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+            +.|+.+|+++......+.+.       ++.+.++||||+.+|...+..++..+|+++
T Consensus        15 naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~-------~~~~~~~d~~g~~~~~~~~~~~l~~~d~~i   87 (179)
T d1wb1a4          15 DHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE-------NYRITLVDAPGHADLIRAVVSAADIIDLAL   87 (179)
T ss_dssp             TSSHHHHHHHHHTTC--------------------CCCEEEET-------TEEEEECCCSSHHHHHHHHHHHTTSCCEEE
T ss_pred             CCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccC-------Cccccccccccccccccchhhhhhhccccc
Confidence            78998886544            45778899888887777776       789999999999999999999999999999


Q ss_pred             EEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHH------HHHHHhhhhhhchhhhhhh
Q psy2609          70 IVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQL------LEQVNAVMGELFASQVMDE  143 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~------~~~~~~~~~~~~~~~~~~~  143 (161)
                      +|+|+.+++..++++++..+...++|+++|+||+|++..+......+.+..+...      ...+|+++..+.+.+.+.+
T Consensus        88 lv~d~~~g~~~~~~~~~~~~~~~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~  167 (179)
T d1wb1a4          88 IVVDAKEGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKN  167 (179)
T ss_dssp             EEEETTTCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHH
T ss_pred             cccccccccchhhhhhhhhhhhcCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHH
Confidence            9999999999999999999999999999999999998655211112222222110      1224566666666666554


Q ss_pred             h
Q psy2609         144 T  144 (161)
Q Consensus       144 ~  144 (161)
                      .
T Consensus       168 ~  168 (179)
T d1wb1a4         168 L  168 (179)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.77  E-value=2e-19  Score=136.20  Aligned_cols=95  Identities=31%  Similarity=0.454  Sum_probs=71.2

Q ss_pred             ccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------Ch
Q psy2609           8 YMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------CA   80 (161)
Q Consensus         8 ~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------~~   80 (161)
                      ++|..++|+++|+|+......+.+.       ++.++|+|||||++|..++..+++.+|++|+|+|+.+|+       ..
T Consensus        55 ~~d~~~~e~~rg~ti~~~~~~~~~~-------~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~  127 (224)
T d1jnya3          55 LLDRLKEERERGVTINLTFMRFETK-------KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEG  127 (224)
T ss_dssp             HHHHHHHC-----------CEEECS-------SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTC
T ss_pred             cccCchhhhcCCccccceEEEEecC-------CceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccc
Confidence            3456688999999999888888777       789999999999999999999999999999999999985       45


Q ss_pred             hHHHHHHHHHHcCCC-cEEEEECCcchhhh
Q psy2609          81 QTQVALKQAWLEKIQ-PILVLNKIDRLILE  109 (161)
Q Consensus        81 ~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~  109 (161)
                      |+.+++..+...+++ +|+++||+|+...+
T Consensus       128 qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~  157 (224)
T d1jnya3         128 QTREHIILAKTMGLDQLIVAVNKMDLTEPP  157 (224)
T ss_dssp             HHHHHHHHHHHTTCTTCEEEEECGGGSSST
T ss_pred             hhHHHHHHHHHhCCCceEEEEEcccCCCcc
Confidence            677787777777776 67789999987543

>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=99.75  E-value=1.1e-18  Score=128.99  Aligned_cols=139  Identities=22%  Similarity=0.233  Sum_probs=100.0

Q ss_pred             ccccccccCCc--------hhHHHcCCccccceEEEEeecCCC----------------CCCceeEEEEeCCCchhhHHH
Q psy2609           2 LCMVSSYMDSR--------KDEQERGITMKSSSISLYYKDNKD----------------TPEEYLINLIDSPGHVDFSSE   57 (161)
Q Consensus         2 ~~g~~~~~D~~--------~~E~~~giti~~~~~~~~~~~~~~----------------~~~~~~i~iiDTpG~~~~~~~   57 (161)
                      +||||++++.+        +.|.++|+|.+.....+.+.....                +....+++|+|||||++|...
T Consensus        15 d~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~   94 (195)
T d1kk1a3          15 DHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMTT   94 (195)
T ss_dssp             TSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHHH
T ss_pred             CCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeeccchhhhhhHH
Confidence            68999996544        568889999987766665542211                122367999999999999999


Q ss_pred             HHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCCCc-EEEEECCcchhhhhcCChHHHHHhHHHHHH--------H
Q psy2609          58 VSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKIQP-ILVLNKIDRLILEMKLSPLDIYVHLSQLLE--------Q  127 (161)
Q Consensus        58 ~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~--------~  127 (161)
                      +..++..+|++++|+|+.+|. ..++.+++..+...++|. |+|+||+|+.....   ....+..+..+..        .
T Consensus        95 ~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~~~---~~~~~~~~~~~~~~~~~~~~~i  171 (195)
T d1kk1a3          95 MLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEK---ALENYRQIKEFIEGTVAENAPI  171 (195)
T ss_dssp             HHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHHH---HHHHHHHHHHHHTTSTTTTCCE
T ss_pred             hhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCccceeeeecccchhhHH---HHHHHHHHHHHhccccCCCCeE
Confidence            999999999999999999986 567888888888888884 67899999976542   1222333333332        2


Q ss_pred             HHhhhhhhchhhhhhh
Q psy2609         128 VNAVMGELFASQVMDE  143 (161)
Q Consensus       128 ~~~~~~~~~~~~~~~~  143 (161)
                      +|+++..+.+.+.|.+
T Consensus       172 IpiSA~~G~ni~~Ll~  187 (195)
T d1kk1a3         172 IPISALHGANIDVLVK  187 (195)
T ss_dssp             EECBTTTTBSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            4556655666555544

>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=99.72  E-value=1.4e-19  Score=137.21  Aligned_cols=72  Identities=32%  Similarity=0.331  Sum_probs=67.0

Q ss_pred             CceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhh
Q psy2609          39 EEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEM  110 (161)
Q Consensus        39 ~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~  110 (161)
                      +..++.|+|||||++|...+..++..+|++|+|+|+.+|+..++..++..+...++|+|+|+||+|+...+.
T Consensus        68 ~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p~iivlNK~D~~~~~~  139 (227)
T d1g7sa4          68 TLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTPFVVAANKIDRIHGWR  139 (227)
T ss_dssp             TCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTTCC
T ss_pred             cccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCeEEEEEECccCCCchh
Confidence            467899999999999999999999999999999999999999999999999999999999999999986543

>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=99.70  E-value=1.2e-17  Score=124.44  Aligned_cols=69  Identities=30%  Similarity=0.390  Sum_probs=62.1

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-ChhHHHHHHHHHHcCC-CcEEEEECCcchhhh
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-CAQTQVALKQAWLEKI-QPILVLNKIDRLILE  109 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-~~~~~~~~~~~~~~~~-p~ilv~NK~Dl~~~~  109 (161)
                      ++++++|||||++|...+..++..+|++|+|+|+.+|+ ..++.+++..+...++ |+|+++||+|+...+
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~~~  156 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKE  156 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSCHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCCccch
Confidence            57999999999999999999999999999999999997 7888899988888887 567889999997654

>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=99.67  E-value=4.9e-17  Score=124.62  Aligned_cols=96  Identities=23%  Similarity=0.350  Sum_probs=57.4

Q ss_pred             cccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC-------C
Q psy2609           7 SYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI-------C   79 (161)
Q Consensus         7 ~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~-------~   79 (161)
                      +++|.++.|+++|++++.....+.|.       .+++.|+|||||.+|...+.++...+|++++|+|+.+|+       .
T Consensus        75 ~~~d~~~~e~~rg~ti~~~~~~~~~~-------~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~  147 (245)
T d1r5ba3          75 WALDSTSEEREKGKTVEVGRAYFETE-------HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERG  147 (245)
T ss_dssp             -------------------CCEEECS-------SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTT
T ss_pred             hhhhccccccccCccccccccccccc-------cceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccc
Confidence            45677789999999999888888777       789999999999999999999999999999999999885       3


Q ss_pred             hhHHHHHHHHHHcCCCc-EEEEECCcchhhh
Q psy2609          80 AQTQVALKQAWLEKIQP-ILVLNKIDRLILE  109 (161)
Q Consensus        80 ~~~~~~~~~~~~~~~p~-ilv~NK~Dl~~~~  109 (161)
                      .|+.+++..+...++|. ++++||+|++..+
T Consensus       148 ~QT~e~l~l~~~~~i~~iiv~iNKmD~~~~~  178 (245)
T d1r5ba3         148 GQTREHAVLARTQGINHLVVVINKMDEPSVQ  178 (245)
T ss_dssp             CCHHHHHHHHHHTTCSSEEEEEECTTSTTCS
T ss_pred             cchHHHHHHHHHcCCCeEEEEEEcCCCCccc
Confidence            48899999888889985 5889999997544

>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=99.59  E-value=1.8e-16  Score=114.82  Aligned_cols=100  Identities=20%  Similarity=0.122  Sum_probs=74.5

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch--------hhHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV--------DFSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~--------~~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+..+      ..++.|.........+.       +.++.+|||||+.        .+...+..+++.||+
T Consensus        15 ~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~-------~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~   87 (178)
T d1wf3a1          15 NVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEG-------RRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNA   87 (178)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET-------TEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSE
T ss_pred             CCCHHHHHHHHhCCCceeecccCCcccccccceeeee-------eeeeeecccccccccccccchhcccccccccccccc
Confidence            78999998766543      23455555444444443       6799999999973        345556778889999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHH--cCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWL--EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~  108 (161)
                      +++|+|++.+....+..+...++.  .++|+++|+||+|+...
T Consensus        88 il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~  130 (178)
T d1wf3a1          88 VVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKY  130 (178)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSS
T ss_pred             eeeeechhhhhcccccchhhheeccccchhhhhhhcccccccC
Confidence            999999999888877777666654  37899999999999653

>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=99.50  E-value=2.9e-15  Score=107.65  Aligned_cols=102  Identities=18%  Similarity=0.093  Sum_probs=74.8

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     +.+..++++.+.....+.+.     +..+++.+|||||+++|...+..+++.++++++|+|.++
T Consensus        15 ~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~   89 (171)
T d2ew1a1          15 GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIN-----GEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITC   89 (171)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCcccccccceEEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeeccc
Confidence            68999997544     44556666666555555555     557899999999999999999999999999999999885


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|+++|+||+|+...
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~  125 (171)
T d2ew1a1          90 EESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER  125 (171)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             chhhhhhhhhhhhhcccccccccEEEEEeecccccc
Confidence            433222 223333322   46889999999998753

>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=99.49  E-value=1.5e-14  Score=103.76  Aligned_cols=101  Identities=21%  Similarity=0.212  Sum_probs=74.8

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch---------hhHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV---------DFSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~---------~~~~~~~~~l~~~d   66 (161)
                      |+|||++++.+-.      +..++.|.......+...       ..++.++||||..         .+...+..++..+|
T Consensus        10 n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad   82 (171)
T d1mkya1          10 NVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWY-------GKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREAD   82 (171)
T ss_dssp             TSSHHHHHHHHHC--------------CCSEEEEEET-------TEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCS
T ss_pred             CCCHHHHHHHHhCCCcceecccCceeecccccccccc-------ccccccccccceeeeeccccccccccccccccccCc
Confidence            7999999877643      334566666555555444       7899999999952         23445677788999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++++++|+..+.......++..+...++|+|+|+||+|+....
T Consensus        83 ~i~~~~~~~~~~~~~~~~~~~~l~~~~~pviiv~NK~Dl~~~~  125 (171)
T d1mkya1          83 LVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLREF  125 (171)
T ss_dssp             EEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHHH
T ss_pred             EEEEeecccccccccccccccccccccccccccchhhhhhhhh
Confidence            9999999999988888888888888999999999999997543

>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=99.48  E-value=6.4e-15  Score=105.69  Aligned_cols=102  Identities=15%  Similarity=-0.039  Sum_probs=60.2

Q ss_pred             ccccccccCCchhHH-Hc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-ER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||+++..+.... ..  ..+.......+...     ++.+.+.+|||||++++...+..+++.+|++|+|+|+++..
T Consensus        11 ~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~i~~~-----~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~   85 (168)
T d2gjsa1          11 GVGKSALARIFGGVEDGPEAEAAGHTYDRSIVVD-----GEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKG   85 (168)
T ss_dssp             TSSHHHHHHHHHTC---------CEEEEEEEEET-----TEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHH
T ss_pred             CcCHHHHHHHHhCCccCCcCCeeeeeecceeecc-----ccccceeeeecccccccceecccchhhhhhhceeccccccc
Confidence            689999875553211 11  11111111233333     56899999999999999999999999999999999998644


Q ss_pred             ChhHHH-HHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          79 CAQTQV-ALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        79 ~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..... ++..+.    ..++|+++|+||+|+...
T Consensus        86 s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~  120 (168)
T d2gjsa1          86 SFEKASELRVQLRRARQTDDVPIILVGNKSDLVRS  120 (168)
T ss_dssp             HHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGG
T ss_pred             cccccccccchhhcccccccceEEEeecccchhhh
Confidence            333322 222222    246899999999999754

>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=99.47  E-value=4.6e-15  Score=107.06  Aligned_cols=102  Identities=20%  Similarity=0.138  Sum_probs=73.3

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     ..+..++.+.......+...     +..+.+.+|||||+++|.......++.+|++|+|+|.++
T Consensus        14 ~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~   88 (175)
T d2f9la1          14 GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-----GKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAK   88 (175)
T ss_dssp             TSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEET-----TEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCcccccccceeeeEEEEEC-----CEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCC
Confidence            68999998544     55666667666555555555     557899999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      .-+... ..++..+.   ..++|+++|+||+|+...
T Consensus        89 ~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~  124 (175)
T d2f9la1          89 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL  124 (175)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             cccchhHHHHHHHHHHhcCCCCcEEEEEeeeccccc
Confidence            432221 22222222   246899999999999754

>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=99.46  E-value=2.3e-14  Score=102.71  Aligned_cols=102  Identities=16%  Similarity=0.098  Sum_probs=71.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++++     ..+..+..+.+.....+...     ...+.+.+|||||++++...+..+++.+|++|+|+|.+.
T Consensus        15 ~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~   89 (169)
T d3raba_          15 SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRN-----DKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN   89 (169)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHHcCCCCcccccccccceeeEEEEee-----cceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECcc
Confidence            68999987654     34445555555444444444     457889999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++....   ....|+++++||+|+...
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~  125 (169)
T d3raba_          90 EESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE  125 (169)
T ss_dssp             HHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGG
T ss_pred             chhhhhhhhhhhhhhcccCCcceEEEEEeecccccc
Confidence            432222 12222222   246778899999998654

>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=99.45  E-value=3.6e-15  Score=109.47  Aligned_cols=102  Identities=18%  Similarity=0.088  Sum_probs=72.3

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     .++..++++.......+.+.     +..+.+.+|||||+++|...+..+++.++++|+|+|++.
T Consensus        16 ~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~-----~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~   90 (194)
T d2bcgy1          16 GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELD-----GKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD   90 (194)
T ss_dssp             TSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEET-----TEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEe-----eEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcc
Confidence            68999987544     34444554444333444444     558899999999999999889999999999999999985


Q ss_pred             CCChhHHH-HHHHH---HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ........ .+..+   ...++|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~  126 (194)
T d2bcgy1          91 QESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK  126 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTT
T ss_pred             hhhhhhHhhhhhhhhhcccCCceEEEEEeccccccc
Confidence            43333222 22222   2347789999999999753

>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=99.44  E-value=2.3e-14  Score=102.34  Aligned_cols=102  Identities=16%  Similarity=0.093  Sum_probs=73.5

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.+     +.++..++.+.......+...     +..+.+.+|||||++++......+++.+|++++|+|.++
T Consensus        14 ~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   88 (166)
T d1z0fa1          14 GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-----GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   88 (166)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEET-----TEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCcccccccccceeEEEEEC-----CEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCc
Confidence            5899988744     445556666665544455444     557899999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+.   ....|+++++||+|+...
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~  124 (166)
T d1z0fa1          89 RSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ  124 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             hHHHHHHHHHHHHHHhhccccceEEEEcccccchhh
Confidence            432222 22233332   246788999999998643

>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=99.44  E-value=4.7e-14  Score=100.31  Aligned_cols=102  Identities=18%  Similarity=0.152  Sum_probs=74.1

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     ..+..++++...........     +..+.+.+|||+|++++......+++.+|++++|+|.++
T Consensus        10 ~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   84 (164)
T d1yzqa1          10 SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-----DRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITN   84 (164)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECS-----SCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccccceeeeccceeeccC-----CCceeeeecccCCcchhccchHHHhhccceEEEeecccc
Confidence            58999987554     45556666555443444443     557899999999999999999999999999999999986


Q ss_pred             CCChhH-HHHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++....   ..++|+++|+||+|+...
T Consensus        85 ~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~  120 (164)
T d1yzqa1          85 VNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK  120 (164)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGG
T ss_pred             ccchhhhHhhHHHHHHhcCCCceEEEEecccchhhh
Confidence            543322 22222222   257899999999999654

>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=99.42  E-value=5.2e-14  Score=100.26  Aligned_cols=102  Identities=18%  Similarity=0.149  Sum_probs=71.8

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++.     .+..+++..+.........     +..+.+.+|||||++++......+++.+|++++|+|.++
T Consensus        12 ~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (164)
T d1z2aa1          12 AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVN-----DEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD   86 (164)
T ss_dssp             TSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEET-----TEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccccccccccceeeeeec-----CceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccc
Confidence            689999875543     3444444444333333333     557899999999999999889999999999999999986


Q ss_pred             CCChhHHH-HHHHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+.  ..++|+++|+||+|+...
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~~  121 (164)
T d1z2aa1          87 RESFEAISSWREKVVAEVGDIPTALVQNKIDLLDD  121 (164)
T ss_dssp             HHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGG
T ss_pred             hhhhhhcccccccccccCCCceEEEeeccCCcccc
Confidence            44332222 222222  258999999999999754

>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=99.42  E-value=2e-14  Score=103.34  Aligned_cols=102  Identities=21%  Similarity=0.124  Sum_probs=70.3

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+..........+...     .....+.+|||||+++|...+..+++.+|++++|+|.+.
T Consensus        15 ~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (174)
T d2bmea1          15 GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVG-----GKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   89 (174)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEET-----TEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccccccccceeeEEEEec-----CcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEeccc
Confidence            68999876544     44444444444333333333     457789999999999999999999999999999999985


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... .+..+.   ..++|+++|+||+|+...
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~  125 (174)
T d2bmea1          90 RETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD  125 (174)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             chhHHHHhhhhcccccccCCceEEEEEEecccccch
Confidence            43322221 222221   247899999999998653

>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=99.41  E-value=1.7e-14  Score=103.69  Aligned_cols=103  Identities=15%  Similarity=0.109  Sum_probs=70.9

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+...     ..+++.++.  ....+..+   +..+.+.+|||||++++......+++.+|++++|+|+++
T Consensus        13 ~vGKTsli~~~~~~~f~~~~~~Ti~~~~--~~~~~~~~---~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (170)
T d1i2ma_          13 GTGKTTFVKRHLTGEFEKKYVATLGVEV--HPLVFHTN---RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTS   87 (170)
T ss_dssp             TSSHHHHHHTTC-----CCEEEETTEEE--EEEEECBT---TCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTS
T ss_pred             CcCHHHHHHHHHhCCCCcccccceeccc--cccccccc---cccccccccccccccccceecchhcccccchhhcccccc
Confidence            68999998766433     233333332  22333322   668899999999999998889999999999999999986


Q ss_pred             CCChhHH-HHHHHH--HHcCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQ-VALKQA--WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~-~~~~~~--~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+.... .++...  ...++|+++|+||+|+....
T Consensus        88 ~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~  123 (170)
T d1i2ma_          88 RVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK  123 (170)
T ss_dssp             GGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSC
T ss_pred             ccccchhHHHHHHHhhccCCCceeeecchhhhhhhh
Confidence            5433222 222222  13589999999999997543

>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=99.41  E-value=1.6e-13  Score=98.79  Aligned_cols=95  Identities=21%  Similarity=0.228  Sum_probs=67.8

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-----------h----hHHHHHHH
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-----------D----FSSEVSTA   61 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-----------~----~~~~~~~~   61 (161)
                      |||||++++.+..+     ..+|.|.+.  ..+.+.         .+.+|||||+.           +    +......+
T Consensus        10 nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~~---------~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (184)
T d2cxxa1          10 NVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWK---------NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDN   78 (184)
T ss_dssp             TSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEET---------TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhCCCceeeCCCCEeecc--cccccc---------cceecccCCceeccccccccccccchhhhhhhhhc
Confidence            79999998766543     355777653  233333         46789999961           1    22335566


Q ss_pred             HHhcCEEEEEEeCC-----------CCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          62 VRLCDGTIIVVDCV-----------EGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        62 l~~~d~~ilVvd~~-----------~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.+|++++|+|+.           .+....+..++..+...++|+|+|+||+|+..
T Consensus        79 ~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~  135 (184)
T d2cxxa1          79 AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIK  135 (184)
T ss_dssp             GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCS
T ss_pred             ccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhh
Confidence            67899999999986           34455666777777788999999999999864

>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=99.41  E-value=1.1e-14  Score=104.90  Aligned_cols=102  Identities=11%  Similarity=0.042  Sum_probs=53.7

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+..     +..++++.......+...     +..+.+.+|||||+++|...+..+++.+|++|+|+|+++
T Consensus        16 ~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~   90 (173)
T d2fu5c1          16 GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELD-----GKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN   90 (173)
T ss_dssp             CC----------------CHHHHHCEEEEEEEEEET-----TEEEEEEEEEC---------CCTTTTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccCccccceEEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCC
Confidence            6899999876643     334444444444445544     457889999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+.   ..+.|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~  126 (173)
T d2fu5c1          91 EKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK  126 (173)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSC
T ss_pred             hhhHHHHHHHHHHhhhhccCCceEEEEEecccchhh
Confidence            44332222 222222   346889999999998653

>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=99.39  E-value=6.4e-14  Score=100.48  Aligned_cols=104  Identities=15%  Similarity=0.071  Sum_probs=58.8

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     .+..+..+...........    ......+.+|||||++++......+++.++++++|+|+++
T Consensus        12 ~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~----~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (175)
T d1ky3a_          12 GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVD----GDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTN   87 (175)
T ss_dssp             TSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCS----SSCCEEEEEECCC----------CCSTTCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHHcCCCCCccCcccccceeeeeeeec----CcccccceeeccCCchhhhhHHHHHhhccceEEEEeeccc
Confidence            689999876543     3333333332222222222    1445789999999999999999999999999999999986


Q ss_pred             CCChhHHHH-HHHHH-------HcCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQVA-LKQAW-------LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~~~-~~~~~-------~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+...... ...+.       ..++|+++|+||+|+....
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~  128 (175)
T d1ky3a_          88 ASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK  128 (175)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG
T ss_pred             ccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhh
Confidence            443222221 22221       1378999999999997644

>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=99.38  E-value=2.2e-13  Score=95.99  Aligned_cols=130  Identities=15%  Similarity=0.128  Sum_probs=87.2

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch--------h-hHHHHHHHHHhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV--------D-FSSEVSTAVRLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~--------~-~~~~~~~~l~~~d   66 (161)
                      |+|||++++.+..+.      .+|.+.......+.+.       +.++.+|||||..        . ....+..++..+|
T Consensus        10 n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad   82 (160)
T d1xzpa2          10 NVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIR-------GILFRIVDTAGVRSETNDLVERLGIERTLQEIEKAD   82 (160)
T ss_dssp             HHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEET-------TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCS
T ss_pred             CCCHHHHHHHHhCCCceeeeccccccccceeEEEEeC-------CeeEEeccccccccCCccHHHHHHHHHHHHHHHhCC
Confidence            689999998886654      2355555544555544       7899999999952        1 2345677789999


Q ss_pred             EEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhhhcCChHHHHHhHHHHHHHHHhhhhhhchhhhhhh
Q psy2609          67 GTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILEMKLSPLDIYVHLSQLLEQVNAVMGELFASQVMDE  143 (161)
Q Consensus        67 ~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  143 (161)
                      ++++|+|++++...+...+....  ...|+++++||+|+....   ...+....+......+++++..+.+.+.|.+
T Consensus        83 ~ii~v~d~~~~~~~~~~~~~~~~--~~~~~i~~~~k~d~~~~~---~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~  154 (160)
T d1xzpa2          83 IVLFVLDASSPLDEEDRKILERI--KNKRYLVVINKVDVVEKI---NEEEIKNKLGTDRHMVKISALKGEGLEKLEE  154 (160)
T ss_dssp             EEEEEEETTSCCCHHHHHHHHHH--TTSSEEEEEEECSSCCCC---CHHHHHHHHTCSTTEEEEEGGGTCCHHHHHH
T ss_pred             EEEEEEeCCCCcchhhhhhhhhc--ccccceeeeeeccccchh---hhHHHHHHhCCCCcEEEEECCCCCCHHHHHH
Confidence            99999999988877776665543  467889999999997543   2333333333223334555555555555543

>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=99.37  E-value=1.3e-13  Score=98.80  Aligned_cols=101  Identities=19%  Similarity=0.109  Sum_probs=67.0

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++++.     ++..+.+.... ...+...     +..+.+.+|||||++++......+++.+|++++|+|.++
T Consensus        14 ~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~-----~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (168)
T d1u8za_          14 GVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLD-----GEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITE   87 (168)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEET-----TEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccCCcccccc-ccccccc-----cccccccccccccccchhhhhhhcccccceeEEEeeccc
Confidence            689999876543     33333332221 1223333     567899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH----HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ..+.    ..++|+++|+||+|+...
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~  124 (168)
T d1u8za_          88 MESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK  124 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGG
T ss_pred             hhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccccc
Confidence            4433332222 2222    247899999999998643

>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=99.37  E-value=2.5e-13  Score=96.84  Aligned_cols=101  Identities=20%  Similarity=0.155  Sum_probs=68.9

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++.     ++..+.+. +.....+...     +....+.+||++|++.+......+++.+|++++|+|.++
T Consensus        13 ~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~-----~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~   86 (167)
T d1kaoa_          13 GVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVD-----SSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVN   86 (167)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEET-----TEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecC-----cceEeeccccCCCccccccchHHHhhcccceeeeeeecc
Confidence            689999875553     33333332 1111222222     557899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHH----HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ...    ...++|++||+||+|+...
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~  123 (167)
T d1kaoa_          87 QQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE  123 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGG
T ss_pred             hhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhc
Confidence            4433332222 111    2247899999999999754

>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=99.36  E-value=2.9e-13  Score=99.09  Aligned_cols=100  Identities=17%  Similarity=0.201  Sum_probs=67.4

Q ss_pred             ccccccccCCchhHH-HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHH----HHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTA----VRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~----l~~~d~~ilVvd~~~   76 (161)
                      |||||++++.+..+. .+++|.......+.+.       +..+.+|||||++++......+    ...++.+++++|+..
T Consensus        13 n~GKTSLln~l~~~~~~~~tt~~~~~~~~~~~-------~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~   85 (209)
T d1nrjb_          13 NSGKTSLLTLLTTDSVRPTVVSQEPLSAADYD-------GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTV   85 (209)
T ss_dssp             TSSHHHHHHHHHHSSCCCBCCCSSCEEETTGG-------GSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTS
T ss_pred             CCCHHHHHHHHhCCCCCCeEEecceEEEEEeC-------CeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEec
Confidence            799999998886544 4455554443333333       6789999999998765554444    445689999999875


Q ss_pred             CCCh--hH-------HHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICA--QT-------QVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~--~~-------~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ....  ..       ...++.....++|+++|+||+|+...
T Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          86 DPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            4321  11       12223334468999999999999754

>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=99.36  E-value=5.3e-14  Score=100.01  Aligned_cols=99  Identities=20%  Similarity=0.139  Sum_probs=70.8

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++..+..+.-  .+.|+......+.+.       ++.+.+|||||++.+......+++.++++++|+|+++...
T Consensus        12 ~~GKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~   84 (165)
T d1ksha_          12 NAGKTTILKKFNGEDVDTISPTLGFNIKTLEHR-------GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQR   84 (165)
T ss_dssp             TSSHHHHHHHHTTCCCSSCCCCSSEEEEEEEET-------TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHcCCCCCcccceEeeeeeecccc-------ccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchh
Confidence            6899999877655442  233444333344333       7899999999999999899999999999999999886433


Q ss_pred             hhH-HHHHHHH----HHcCCCcEEEEECCcchh
Q psy2609          80 AQT-QVALKQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~-~~~~~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ... ...+...    ...++|+++|+||+|+..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  117 (165)
T d1ksha_          85 MQDCQRELQSLLVEERLAGATLLIFANKQDLPG  117 (165)
T ss_dssp             HHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHHHhhhhhhhhcccCCCceEEEEecccccc
Confidence            222 2222222    235789999999999864

>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=99.36  E-value=5.6e-14  Score=100.18  Aligned_cols=102  Identities=17%  Similarity=0.066  Sum_probs=69.5

Q ss_pred             ccccccccC-----CchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMD-----SRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D-----~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.     .+..+..++++.......+...     +..+.+.+|||||+++|...+..+++.+|++++|+|.++
T Consensus        12 ~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (166)
T d1g16a_          12 GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN-----GKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   86 (166)
T ss_dssp             TSSHHHHHHHHHHCCCCC-------CCEEEEEEESS-----SCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEEC-----CEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            689999875     4455666777766655566555     668899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......+ ....   ....|+++++||.|+...
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~  122 (166)
T d1g16a_          87 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR  122 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTC
T ss_pred             ccCHHHHHhhhhhhhccccCcceeeeecchhhhhhh
Confidence            4333222222 1121   235677899999998654

>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=99.36  E-value=6.6e-13  Score=95.83  Aligned_cols=100  Identities=18%  Similarity=0.182  Sum_probs=74.1

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh------------hHHHHHHHHH
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD------------FSSEVSTAVR   63 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~------------~~~~~~~~l~   63 (161)
                      ++|||++++.+-.+      ...+.+.......+.+.       +..+.++||||+..            +...+..+++
T Consensus        18 ~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~-------~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~   90 (186)
T d1mkya2          18 NVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFID-------GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIE   90 (186)
T ss_dssp             TSSHHHHHHHHHTSTTEEECCCC------CCEEEEET-------TEEEEESSCSCC-----------CCSCCHHHHHHHH
T ss_pred             CCCHHHHHHHHHCCCcceeecccccccccceeeeccC-------CceeeeeccCCccccccccccccccchhHHHHHHHh
Confidence            78999999776432      22344444444444444       67899999999753            3345778889


Q ss_pred             hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          64 LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        64 ~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+|++++|+|+..+...+...+...+...+.|+|+|+||+|+...
T Consensus        91 ~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~~i~v~nK~D~~~~  135 (186)
T d1mkya2          91 KADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVH  135 (186)
T ss_dssp             HCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTT
T ss_pred             cCCEEEEeecccccchhhHHHHHHHHHHcCCceeeeccchhhhcc
Confidence            999999999999999999988888888899999999999998643

>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=99.35  E-value=1.6e-13  Score=98.24  Aligned_cols=102  Identities=18%  Similarity=0.048  Sum_probs=71.7

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..     ++.+..+..........+.+.     +....+.+|||||++++......+++.+|++++|+|.++
T Consensus        16 ~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   90 (170)
T d1r2qa_          16 AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD-----DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITN   90 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccccccccccccceeecc-----ceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccch
Confidence            5899988644     444555555544433333333     557889999999999999999999999999999999885


Q ss_pred             CCChhHH-HHHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++..+.   ..++|+++|+||+|+...
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~  126 (170)
T d1r2qa_          91 EESFARAKNWVKELQRQASPNIVIALSGNKADLANK  126 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             hhHHHHHHHHhhhhhhccCCCceEEeeccccccccc
Confidence            4332222 2223222   247889999999998654

>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=99.35  E-value=3.9e-13  Score=95.64  Aligned_cols=101  Identities=17%  Similarity=0.073  Sum_probs=69.4

Q ss_pred             CccccccccCCchhHHH---cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCC
Q psy2609           1 MLCMVSSYMDSRKDEQE---RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEG   77 (161)
Q Consensus         1 ~~~g~~~~~D~~~~E~~---~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~   77 (161)
                      .++|||+++..+....-   ..-|+......+.+       +++.+.+||+||++.+...+..++..++++++|+|+++.
T Consensus        11 ~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~~~-------~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   83 (164)
T d1zd9a1          11 QYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK-------GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQ   83 (164)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEE-------TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCG
T ss_pred             CCCCHHHHHHHHHcCCCCCcccccceeeeeeeee-------eeEEEEEeeccccccccccccccccccchhhcccccccc
Confidence            37899999876643321   11233323333333       378999999999999999999999999999999999864


Q ss_pred             CChhH-HHHHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          78 ICAQT-QVALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        78 ~~~~~-~~~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+... ...+..+    ...++|+++|+||+|+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~  119 (164)
T d1zd9a1          84 EKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  119 (164)
T ss_dssp             GGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             cccchhhhhhhhhhhhhcccCCcEEEEEeccccchh
Confidence            33222 2222222    2247899999999998643

>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=99.35  E-value=4.7e-13  Score=95.79  Aligned_cols=102  Identities=16%  Similarity=0.093  Sum_probs=69.1

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQ   81 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~   81 (161)
                      ++|||++++++..+.-...+.........+.     .+++.+.+||+||++++...+..+++.+|++++|+|+++..+..
T Consensus        26 ~vGKSsLi~~l~~~~~~~~~~~~~~~~~~i~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~  100 (176)
T d1fzqa_          26 NAGKTTLLKQLASEDISHITPTQGFNIKSVQ-----SQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFE  100 (176)
T ss_dssp             TSSHHHHHHHHCCSCCEEEEEETTEEEEEEE-----ETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHH
T ss_pred             CCCHHHHHHHHhcCCCCcceeeeeeeEEEec-----cCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchh
Confidence            7899999877644321111111111111222     33789999999999999999999999999999999998654433


Q ss_pred             HH-HHHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          82 TQ-VALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        82 ~~-~~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .. ..+...    ...++|+++|+||+|+...
T Consensus       101 ~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~  132 (176)
T d1fzqa_         101 ETGQELTELLEEEKLSCVPVLIFANKQDLLTA  132 (176)
T ss_dssp             HHHHHHHHHTTCGGGTTCCEEEEEECTTSTTC
T ss_pred             hhhhhhhhhhhhhccCCCeEEEEEEecccccc
Confidence            32 222221    2247899999999999754

>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=99.34  E-value=4.9e-14  Score=101.43  Aligned_cols=101  Identities=15%  Similarity=0.053  Sum_probs=69.4

Q ss_pred             ccccccccCCchh-----HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRKD-----EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~~-----E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++..     +..+.. .+.....+.+.     +..+.+.+|||+|++++......+++.+|++++|+|.++
T Consensus        16 ~vGKTsLi~r~~~~~f~~~~~~t~-~~~~~~~~~~~-----~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (173)
T d2fn4a1          16 GVGKSALTIQFIQSYFVSDYDPTI-EDSYTKICSVD-----GIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIND   89 (173)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCTTC-CEEEEEEEEET-----TEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCccccccc-ccceeeEeccC-----Ceeeeeeccccccccccccccchhhccceeeeeeccccc
Confidence            6899998755432     222222 22222333333     557899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-ALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+..... ++..+    ...++|++||+||+|+...
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~  126 (173)
T d2fn4a1          90 RQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQ  126 (173)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGG
T ss_pred             ccccchhhhhhHHHHHHhccCCCceEEEEEeechhhc
Confidence            54333222 22222    2357899999999998653

>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=99.34  E-value=3.6e-13  Score=96.51  Aligned_cols=101  Identities=19%  Similarity=0.126  Sum_probs=69.5

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++.     ++..+.+... ....+.+.     +..+.+.+|||+|++++......+++.+|++++|+|+++
T Consensus        14 ~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d   87 (169)
T d1x1ra1          14 GVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEID-----NQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTD   87 (169)
T ss_dssp             TSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEET-----TEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccCcceeec-cccccccc-----cccccccccccccccccccchhhhhhhccEEEEeccccc
Confidence            689999886543     3444433221 11222333     557899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHH----HHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQ-VAL----KQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~-~~~----~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.... .++    +.....++|+++++||+|+...
T Consensus        88 ~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~  124 (169)
T d1x1ra1          88 KASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHL  124 (169)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTT
T ss_pred             chhhhccchhhHHHHhhccccCccEEEEecccchhhh
Confidence            4332222 122    2222347899999999998754

>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=99.34  E-value=2.3e-13  Score=98.58  Aligned_cols=107  Identities=13%  Similarity=0.087  Sum_probs=67.9

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCC-----CCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEE
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKD-----TPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIV   71 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~-----~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilV   71 (161)
                      ++|||+++.++     ..+..+..+.......+.+.....     .+...++.+|||||+++|...+..+++.+|++|+|
T Consensus        15 ~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v   94 (186)
T d2f7sa1          15 GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLM   94 (186)
T ss_dssp             TSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEEE
Confidence            68999987544     333333333332223333321110     12246899999999999999999999999999999


Q ss_pred             EeCCCCCChhHHHHHHH-H----HHcCCCcEEEEECCcchhh
Q psy2609          72 VDCVEGICAQTQVALKQ-A----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        72 vd~~~~~~~~~~~~~~~-~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      +|+++..+......|.. .    ...+.|+++|+||+|+...
T Consensus        95 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~  136 (186)
T d2f7sa1          95 FDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ  136 (186)
T ss_dssp             EETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG
T ss_pred             EeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhh
Confidence            99985433322222211 1    1234678899999999653

>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=99.33  E-value=5.5e-14  Score=100.72  Aligned_cols=102  Identities=14%  Similarity=0.081  Sum_probs=61.6

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++.++...      ..+.+........+...     +..+++.||||||++++...+..+++.+|++++|+|.+
T Consensus        16 ~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~   90 (170)
T d2g6ba1          16 GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVD-----GVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVT   90 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEET-----TEEEEEEEEECCCC--------CCGGGCSEEEEEEETT
T ss_pred             CcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEec-----CcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCC
Confidence            68999987665322      12233333333333343     55789999999999999999999999999999999998


Q ss_pred             CCCChhHHH-HHHHHH---HcCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQV-ALKQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~~-~~~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ...+..... .+....   ....|+++|+||+|+...
T Consensus        91 ~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~  127 (170)
T d2g6ba1          91 NKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHE  127 (170)
T ss_dssp             CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSC
T ss_pred             cccchhhhhhhhhhhhhccCCCceEEEEEeeechhhc
Confidence            543322222 222121   246788999999998653

>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=99.33  E-value=1e-13  Score=99.58  Aligned_cols=102  Identities=16%  Similarity=0.095  Sum_probs=71.2

Q ss_pred             ccccccccC-----CchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMD-----SRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D-----~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.     ++..+..++.+...........     +....+.+||++|++.+......+++.+|++++|+|.++
T Consensus        13 ~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   87 (173)
T d2a5ja1          13 GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNID-----GKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   87 (173)
T ss_dssp             TSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEET-----TEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHhcCCCCCCcccceeeccceeeeeee-----eeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecC
Confidence            689999874     4456666676666554444444     457899999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHHHH---cCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQAWL---EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~~---~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ..++..+..   .++|++||+||+|+...
T Consensus        88 ~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~  123 (173)
T d2a5ja1          88 RETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR  123 (173)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             hHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhh
Confidence            433222 222322222   47899999999998654

>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=99.32  E-value=5.2e-13  Score=95.38  Aligned_cols=101  Identities=15%  Similarity=0.062  Sum_probs=65.9

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+.... .......     +..+.+.+|||+|++++......+++.+|++++|+|+++
T Consensus        12 ~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~-----~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~   85 (171)
T d2erxa1          12 GVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCD-----KSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITS   85 (171)
T ss_dssp             TSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEET-----TEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCccCcceeecc-ccceeec-----cccceeccccccccccccccccccccceeEEEEEeeccc
Confidence            68999987443     333333332111 1112222     556889999999999999999999999999999999985


Q ss_pred             CCChhH-HHHHHHH-----HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVALKQA-----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~~~~-----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .-+... ..++..+     ...++|+++|+||+|+...
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~  123 (171)
T d2erxa1          86 RQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPS  123 (171)
T ss_dssp             HHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGG
T ss_pred             ccchhcccchhhhhhhhhccCCCCcEEEEeeccccccc
Confidence            322211 1222222     1257899999999998643

>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=99.32  E-value=2e-13  Score=98.31  Aligned_cols=101  Identities=12%  Similarity=0.028  Sum_probs=67.4

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+.     ++..+.+. +.........     ++.+.+.+|||||++.|...+..+++.+|++++|+|.++
T Consensus        12 ~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (177)
T d1kmqa_          12 ACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVD-----GKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDS   85 (177)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEET-----TEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCCcCCcee-eecccccccc-----ccceeeeccccCccchhcccchhhcccchhhhhhcccch
Confidence            579999875443     33333322 1111112222     557889999999999999999999999999999999986


Q ss_pred             CCChhH-HHHH-HHHH--HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQT-QVAL-KQAW--LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~-~~~~-~~~~--~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+... ...+ ....  ..++|++||+||+|+...
T Consensus        86 ~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~  121 (177)
T d1kmqa_          86 PDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND  121 (177)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTC
T ss_pred             hHHHHHHHHHHHHHHHHhCCCCceEEeeecccccch
Confidence            433222 1112 2222  247999999999999753

>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=99.31  E-value=3.1e-13  Score=96.43  Aligned_cols=102  Identities=19%  Similarity=0.099  Sum_probs=66.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+........+...     +..+.+.+|||+|++++......+++.+|++++|+|.++
T Consensus        13 ~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   87 (167)
T d1z08a1          13 CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIG-----GKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITD   87 (167)
T ss_dssp             TSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESS-----SCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccccccccchheeeeccC-----CccceeeeeccCCcceecccchhhccCCceeEEEEeCCc
Confidence            58999998544     44555555544443344443     567899999999999999999999999999999999986


Q ss_pred             CCChhHHHH-HHH---HHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVA-LKQ---AWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~-~~~---~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+...... +..   ......|+++|+||+|+...
T Consensus        88 ~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~  123 (167)
T d1z08a1          88 EDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE  123 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG
T ss_pred             hhHHHhhhhhhhhcccccccccceeeeccccccccc
Confidence            544333222 222   22357788999999999754

>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=99.31  E-value=3.4e-13  Score=96.17  Aligned_cols=102  Identities=19%  Similarity=0.034  Sum_probs=69.3

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+..............     .....+.+|||+|++++......+++.++++++|+|.+.
T Consensus        14 ~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   88 (167)
T d1z0ja1          14 GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQ-----NELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITK   88 (167)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCccccccccccccccccccc-----ccccceeeeecCCchhhhHHHHHHHhhccceEEEeeech
Confidence            58999988544     44444444433332333333     346678999999999999999999999999999999985


Q ss_pred             CCChhHHHHH-HHH---HHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQA---WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~---~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ...   ...+.|+++|+||+|+...
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~  124 (167)
T d1z0ja1          89 EETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV  124 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGG
T ss_pred             hhhhhhHHHhhhhhhhccCCcceEEEecccchhccc
Confidence            4333222222 111   2357889999999999643

>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=99.31  E-value=2.8e-13  Score=98.47  Aligned_cols=100  Identities=16%  Similarity=0.151  Sum_probs=68.0

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+. +.....+...     +..+.+.+|||||+++|......+++.+|++++|+|+++
T Consensus        19 ~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~-----~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~   92 (185)
T d2atxa1          19 AVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVG-----GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN   92 (185)
T ss_dssp             TSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESS-----SCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeC-----CceEEeecccccccchhhhhhhhcccccceeeeccccch
Confidence            58999987544     333333332 2222222222     567899999999999999999999999999999999986


Q ss_pred             CCChhHH-HHH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VAL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      .-+.... ..+ ....  ..++|+++|+||+|+..
T Consensus        93 ~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~  127 (185)
T d2atxa1          93 PASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRD  127 (185)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCeeEeeecccccc
Confidence            4332221 112 2222  34789999999999875

>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=99.30  E-value=1e-12  Score=94.11  Aligned_cols=100  Identities=16%  Similarity=0.072  Sum_probs=68.4

Q ss_pred             ccccccccCCchhHHH--cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE--RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~--~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++.++.....  ...|........  .     .+.+.+.+|||||++.+...+..+++.++++++|+|++....
T Consensus        22 ~vGKTSli~rl~~~~~~~~~~t~~~~~~~~--~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~   94 (173)
T d1e0sa_          22 AAGKTTILYKLKLGQSVTTIPTVGFNVETV--T-----YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDR   94 (173)
T ss_dssp             TSSHHHHHHHTTCCCCEEEEEETTEEEEEE--E-----ETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhcCCCCCccceeeeeEEEe--e-----ccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchh
Confidence            6899999877643321  122222222222  2     337899999999999999999999999999999999985433


Q ss_pred             hhH-HHHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          80 AQT-QVALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 ~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      ... ...+....    ..++|+++|+||+|+...
T Consensus        95 ~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~  128 (173)
T d1e0sa_          95 IDEARQELHRIINDREMRDAIILIFANKQDLPDA  128 (173)
T ss_dssp             HHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHhhhcccccceeeeeeeccccccc
Confidence            222 22222221    247899999999999653

>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=99.28  E-value=1.7e-12  Score=91.49  Aligned_cols=101  Identities=15%  Similarity=0.071  Sum_probs=71.8

Q ss_pred             ccccccccCCchh------HHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh--------hHHHHHHHHHhcCE
Q psy2609           2 LCMVSSYMDSRKD------EQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD--------FSSEVSTAVRLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~------E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~--------~~~~~~~~l~~~d~   67 (161)
                      |+|||++++.+-.      ...+|.+.......+.+.       ..++.++||||..+        ....+..++..+|+
T Consensus        11 nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~   83 (161)
T d2gj8a1          11 NAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHID-------GMPLHIIDTAGLREASDEVERIGIERAWQEIEQADR   83 (161)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEET-------TEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSE
T ss_pred             CCCHHHHHHHHhCCCceEeecccccccceEeeeeecc-------CceeeeccccccccccccchhHHHHHHHHHHHhccc
Confidence            7999999866642      335577666555555555       78999999999643        23446777899999


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHH---cCCCcEEEEECCcchhhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWL---EKIQPILVLNKIDRLILE  109 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++++|+...........+.....   .++|+++|+||+|+....
T Consensus        84 ~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~~  128 (161)
T d2gj8a1          84 VLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGET  128 (161)
T ss_dssp             EEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCC
T ss_pred             cceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhhH
Confidence            999999987655444444332322   379999999999997643

>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=99.28  E-value=7.8e-13  Score=94.19  Aligned_cols=100  Identities=18%  Similarity=0.137  Sum_probs=69.1

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.+..... ..+...     +..+.+.+||++|++.+......+++.++++++|+|.++
T Consensus        13 ~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~   86 (166)
T d1ctqa_          13 GVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVID-----GETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN   86 (166)
T ss_dssp             TSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEET-----TEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCccCCccceeec-cceeee-----ceeeeeeeeeccCccccccchhhhhhcccccceeecccc
Confidence            689998876554     333444433222 112222     557899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHH----HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+    ...++|+++|+||+|+..
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~  122 (166)
T d1ctqa_          87 TKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA  122 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC
T ss_pred             cccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc
Confidence            4332222222 222    124689999999999864

>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=99.27  E-value=3e-12  Score=91.42  Aligned_cols=100  Identities=17%  Similarity=0.078  Sum_probs=66.2

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+..... ..+...     +..+.+.+|||||++.+. ....+++.++++++|+|.++
T Consensus        12 ~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~-----~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~   84 (168)
T d2atva1          12 GVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATID-----DEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITD   84 (168)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEET-----TEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCccCCceecccc-cccccc-----ccceEEEEeecccccccc-cchhhhcccccceeecccCC
Confidence            57999887544     4444554433321 112222     557899999999998875 56778999999999999986


Q ss_pred             CCChhHHHHH-HH----HHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQ----AWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~----~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......+ ..    ....+.|+++|+||+|+...
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~  121 (168)
T d2atva1          85 RGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS  121 (168)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG
T ss_pred             ccchhhhhhhcccccccccccCcceeeeccchhhhhh
Confidence            4433222211 11    12247899999999999643

>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=99.27  E-value=1.8e-12  Score=92.29  Aligned_cols=102  Identities=15%  Similarity=0.065  Sum_probs=69.5

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+.... ...+...     +..+.+.+||++|++++...+..+++.+|++++|+|+++
T Consensus        13 ~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (167)
T d1c1ya_          13 GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVD-----CQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITA   86 (167)
T ss_dssp             TSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESS-----SCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEee-----eeEEEeccccccCcccccccccccccccceeEEeeeccc
Confidence            57999987544     444444333221 1122222     567899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HHHHHH----HcCCCcEEEEECCcchhhh
Q psy2609          77 GICAQTQV-ALKQAW----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        77 ~~~~~~~~-~~~~~~----~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+..... ++..+.    ..++|+++|+||+|+....
T Consensus        87 ~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~  124 (167)
T d1c1ya_          87 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER  124 (167)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC
T ss_pred             hhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCccccc
Confidence            44333322 222221    2468999999999997543

>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=99.27  E-value=6.8e-13  Score=95.75  Aligned_cols=99  Identities=17%  Similarity=0.086  Sum_probs=66.3

Q ss_pred             ccccccccCCchhHH--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      ++|||+++.++..+.  ....|.........+.       .+.+.+|||||++.+......+++.+|++++|+|+++...
T Consensus        27 ~vGKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~-------~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s   99 (182)
T d1moza_          27 GAGKTTILYRLQIGEVVTTKPTIGFNVETLSYK-------NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDR   99 (182)
T ss_dssp             TSSHHHHHHHTCCSEEEEECSSTTCCEEEEEET-------TEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTT
T ss_pred             CCCHHHHHHHHhcCCCCccccccceEEEEEeeC-------CEEEEEEecccccccchhHHhhhccceeEEEEeeeccccc
Confidence            789999987664333  2223333333333333       7899999999999999899999999999999999987655


Q ss_pred             hhHH-HHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          80 AQTQ-VALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      .... ..+....    ..+.|+++|+||+|+..
T Consensus       100 ~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~  132 (182)
T d1moza_         100 MSTASKELHLMLQEEELQDAALLVFANKQDQPG  132 (182)
T ss_dssp             HHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT
T ss_pred             chhHHHHHHHHHHhhccCCcceEEEEEeecccc
Confidence            4432 2222221    23689999999999964

>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=99.26  E-value=7.8e-13  Score=94.88  Aligned_cols=101  Identities=18%  Similarity=0.078  Sum_probs=68.0

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     ..+..+++........+...     +..+.+.+|||+|..++......++..++++++++|.+.
T Consensus        16 ~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   90 (174)
T d1wmsa_          16 GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-----GHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDD   90 (174)
T ss_dssp             TSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEET-----TEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeec-----CceeeEeeecccCcceehhhhhhhhhccceEEEEEeeec
Confidence            68999998444     44555555444333333333     457889999999999999999999999999999999985


Q ss_pred             CCChhHHHHH-HHHH-------HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQVAL-KQAW-------LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~-------~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+......| ..+.       ..++|+++|+||+|+..
T Consensus        91 ~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~  129 (174)
T d1wmsa_          91 SQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE  129 (174)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS
T ss_pred             ccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh
Confidence            4332221111 1111       13689999999999854

>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=99.25  E-value=3.1e-12  Score=91.40  Aligned_cols=101  Identities=15%  Similarity=0.105  Sum_probs=64.8

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+... +.....+...     +..+.+.+|||+|++++......+++.+|++++|+|.++
T Consensus        15 ~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   88 (171)
T d2erya1          15 GVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVID-----DRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTD   88 (171)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEET-----TEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeec-----ccccccccccccccccccccccccccccceEEEeecccc
Confidence            58999987544     333333222 2222333333     557899999999999999999999999999999999985


Q ss_pred             CCChhHHH-----HHHHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQV-----ALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~-----~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+.....     +.+.......|+|+|+||+|+...
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~  125 (171)
T d2erya1          89 RGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQ  125 (171)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTS
T ss_pred             ccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhh
Confidence            43322221     222222357899999999998643

>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=99.25  E-value=5.5e-13  Score=94.98  Aligned_cols=101  Identities=20%  Similarity=0.097  Sum_probs=69.2

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++..+     ..+..+++.... ...+.++     +..+.+.+|||+|.+++......+++.+|++++|+|.++
T Consensus        14 ~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~-----~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   87 (167)
T d1xtqa1          14 SVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVN-----GQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTS   87 (167)
T ss_dssp             TSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEET-----TEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecC-----cEEEEeeecccccccccccccchhhhhhhhhhhhcccch
Confidence            68999987554     333334333321 1223333     567899999999999988888889999999999999986


Q ss_pred             CCChhHHHHH-----HHHHHcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-----KQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-----~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .-+......|     +.....++|+++|+||+|+...
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~  124 (167)
T d1xtqa1          88 IKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHME  124 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGG
T ss_pred             hhhhhhhhhhhhhhhhcccccccceeeeccccccccc
Confidence            5433332222     2222357899999999998653

>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=99.24  E-value=1.6e-13  Score=99.46  Aligned_cols=102  Identities=17%  Similarity=0.080  Sum_probs=68.2

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||++++.+.     .+..+.+........+...     +..+.+.+|||||+..+......++..+|++++++|.++
T Consensus        12 ~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   86 (184)
T d1vg8a_          12 GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVD-----DRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTA   86 (184)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESS-----SCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeC-----CceEEEEeeecCCcccccccccccccCccEEEEeecccc
Confidence            689999986443     3333333333222222222     557899999999999988888899999999999999975


Q ss_pred             CCChhHHHHH-HHHH-------HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW-------LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~-------~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......| ..+.       ..++|+++|+||+|+...
T Consensus        87 ~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~  126 (184)
T d1vg8a_          87 PNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR  126 (184)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC
T ss_pred             hhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc
Confidence            3322221111 1111       246899999999998643

>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=99.23  E-value=4.6e-12  Score=90.33  Aligned_cols=102  Identities=20%  Similarity=0.115  Sum_probs=72.5

Q ss_pred             ccccccccCC-----chhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDS-----RKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~-----~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.+     +.++..+++..+.....+.+.     +..+.+.+|||+|++++...+..+++.+|++++|+|.++
T Consensus        13 ~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~-----~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (170)
T d1ek0a_          13 AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTIN-----EHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTK   87 (170)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-----TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCccccccccceeeccccccc-----cccccccccccCCchhHHHHHHHHHhccceEEEEEeCCc
Confidence            5899997644     444455555544444445444     557899999999999999999999999999999999986


Q ss_pred             CCChhHHHHH-HHHH---HcCCCcEEEEECCcchhh
Q psy2609          77 GICAQTQVAL-KQAW---LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        77 ~~~~~~~~~~-~~~~---~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..+......+ ....   ....|+++++||+|+...
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~  123 (170)
T d1ek0a_          88 PQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE  123 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGS
T ss_pred             ccchhhhhhhhhhhccccccccceeeeecccccccc
Confidence            4433333222 2221   236788999999998653

>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=99.23  E-value=1.8e-12  Score=93.30  Aligned_cols=101  Identities=20%  Similarity=0.119  Sum_probs=70.4

Q ss_pred             ccccccccCCch-----hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSRK-----DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~~-----~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++.     .+..+..+.......+.+.     +..+.+.+|||||++++......+++.+|++++|+|.++
T Consensus        17 ~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~   91 (177)
T d1x3sa1          17 GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVD-----GNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR   91 (177)
T ss_dssp             TSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-----TEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccccceeecceeEEEEEe-----ccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            689999886554     3444455444333344444     457899999999999999889999999999999999885


Q ss_pred             CCChhH-HHHHHHHH----HcCCCcEEEEECCcchh
Q psy2609          77 GICAQT-QVALKQAW----LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~-~~~~~~~~----~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+... ..++..+.    ....|+++++||.|...
T Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~  127 (177)
T d1x3sa1          92 RDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  127 (177)
T ss_dssp             HHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             ccccccchhhhhhhcccccccceeeEEEeecccccc
Confidence            333222 22222222    23577789999999754

>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=99.22  E-value=1.6e-12  Score=94.76  Aligned_cols=100  Identities=15%  Similarity=0.096  Sum_probs=68.4

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+++... ........     ++.+.+.+|||||+++|......+++.+|++++|+|.++
T Consensus        13 ~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~-----~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (191)
T d2ngra_          13 AVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIG-----GEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVS   86 (191)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEET-----TEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeC-----Cceeeeeccccccchhhhhhhhhcccccceeecccccch
Confidence            57999987543     44444443322 11222222     557899999999999999999999999999999999986


Q ss_pred             CCChhHHH-HH-HHHH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-AL-KQAW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~-~~~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.+... .| ....  ..++|+++|+||+|+..
T Consensus        87 ~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~  121 (191)
T d2ngra_          87 PSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRD  121 (191)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGG
T ss_pred             HHHHHHHHHHHHHHHhhcCCCCceEEEeccccccc
Confidence            44332221 12 2222  24789999999999964

>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=99.21  E-value=1.7e-11  Score=89.87  Aligned_cols=104  Identities=14%  Similarity=0.057  Sum_probs=65.7

Q ss_pred             ccccccccCCchhHHH-c-CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHH-HHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQE-R-GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSS-EVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-~-giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~-~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      |+|||++++++....- . -.|+......+.+.    ......+.+||+||++++.. .+..++..++++++|+|+++..
T Consensus        10 ~~GKTsLl~~l~~~~~~~~~~t~~~~~~~~~~~----~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~   85 (207)
T d2fh5b1          10 DSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVN----NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQ   85 (207)
T ss_dssp             TSSHHHHHHHHHHSCCCCBCCCCSCEEEEEECS----STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHH
T ss_pred             CCCHHHHHHHHHcCCCCcccCCeeEEEEEEEEe----eeeeeeeeeeeccccccccchhhhhhhhhccccceEEEccccc
Confidence            7999999887754221 0 11122222223322    14567899999999998864 5677789999999999998533


Q ss_pred             Chh---HHHHHHHHH-----HcCCCcEEEEECCcchhhh
Q psy2609          79 CAQ---TQVALKQAW-----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        79 ~~~---~~~~~~~~~-----~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ...   ...+...+.     ..++|+++|+||+|++.+.
T Consensus        86 ~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          86 REVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             ccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            211   111112221     2357889999999997643

>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=99.21  E-value=1.9e-12  Score=93.59  Aligned_cols=100  Identities=13%  Similarity=0.089  Sum_probs=68.6

Q ss_pred             ccccccccC-----CchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMD-----SRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D-----~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      .+|||+++.     .++++..+.+. ......+...     ++.+.+.+|||+|++.+......+++.+|++++|+|.++
T Consensus        12 ~vGKTsli~r~~~~~f~~~~~~t~~-~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (179)
T d1m7ba_          12 QCGKTALLHVFAKDCFPENYVPTVF-ENYTASFEID-----TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   85 (179)
T ss_dssp             TSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEECS-----SCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CcCHHHHHHHHHhCCCCCccCCcee-eccccccccc-----ceEEeeccccccccccccccccchhhhhhhhheeeeccc
Confidence            479998874     44545444432 1112222222     668999999999999998888899999999999999986


Q ss_pred             CCChhHH-HHHHH-HH--HcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQ-VALKQ-AW--LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~-~~~~~-~~--~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+.... ..|.. ..  ..++|+++|+||+|+..
T Consensus        86 ~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          86 PETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  120 (179)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             CCCHHHHHHHHHHHHhccCCcceEEEEEecccccc
Confidence            4433321 12222 21  24789999999999864

>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=99.21  E-value=9.7e-12  Score=90.45  Aligned_cols=98  Identities=16%  Similarity=0.167  Sum_probs=67.3

Q ss_pred             ccccccccCCchhHH-------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-------------hhHHHHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ-------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-------------DFSSEVSTA   61 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-------------~~~~~~~~~   61 (161)
                      |||||++++.+..++       ..+.|..   ......       ...+.++|++|..             .+......+
T Consensus        33 n~GKSTLin~L~g~~~~~~~~~~~~~t~~---~~~~~~-------~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (195)
T d1svia_          33 NVGKSSFINSLINRKNLARTSSKPGKTQT---LNFYII-------NDELHFVDVPGYGFAKVSKSEREAWGRMIETYITT  102 (195)
T ss_dssp             TSSHHHHHHHHHTC-------------CC---EEEEEE-------TTTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHhcCCCceEEeecccceeee---cccccc-------cccceEEEEEeeccccccccccchhhhHHhhhhcc
Confidence            799999998886432       1222222   112222       3456678888841             122334455


Q ss_pred             HHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          62 VRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        62 l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +..+|++++|+|+..++..++..+++.+...++|+++|+||+|+....
T Consensus       103 ~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~~~piivv~NK~D~~~~~  150 (195)
T d1svia_         103 REELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKG  150 (195)
T ss_dssp             CTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGG
T ss_pred             ccchhhhhhhhhccccccccccccccccccccCcceechhhccccCHH
Confidence            556799999999999999999999999999999999999999986443

>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=99.20  E-value=5.6e-12  Score=89.24  Aligned_cols=102  Identities=20%  Similarity=0.140  Sum_probs=69.4

Q ss_pred             cccccccc-----CCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH-HHHHHHhcCEEEEEEeCC
Q psy2609           2 LCMVSSYM-----DSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE-VSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus         2 ~~g~~~~~-----D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~-~~~~l~~~d~~ilVvd~~   75 (161)
                      ++|||+++     +.+..+..+..+...........     .....+.+||++|...+... ...+++.+|++++|+|.+
T Consensus        12 ~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~   86 (165)
T d1z06a1          12 NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDID-----GERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT   86 (165)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEET-----TEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETT
T ss_pred             CcCHHHHHHHHHhCCCCCccCcccccccceeeeeee-----ccceEEEEEeccCchhhccccceeeecCCCceEEEEEee
Confidence            68999886     44444555555444443444444     55789999999999877654 677899999999999998


Q ss_pred             CCCChhHH-HHHHHHH----HcCCCcEEEEECCcchhh
Q psy2609          76 EGICAQTQ-VALKQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        76 ~~~~~~~~-~~~~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      +..+.... .++..+.    ..++|+++|+||+|+...
T Consensus        87 ~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~  124 (165)
T d1z06a1          87 NMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSA  124 (165)
T ss_dssp             CHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGG
T ss_pred             hhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhc
Confidence            64332222 2222222    247899999999998654

>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=99.19  E-value=9e-12  Score=89.53  Aligned_cols=102  Identities=20%  Similarity=0.137  Sum_probs=64.3

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCch-------hhHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHV-------DFSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~-------~~~~~~~~~l~~~d~~i   69 (161)
                      |+|||++++.+..+.     ..+.|...... ....     ....++.+|||||+.       .+...+...+..+++++
T Consensus        11 nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~-~~~~-----~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (180)
T d1udxa2          11 NAGKSSLLAAMTRAHPKIAPYPFTTLSPNLG-VVEV-----SEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLL   84 (180)
T ss_dssp             GGCHHHHHHHHCSSCCEECCCTTCSSCCEEE-EEEC-----SSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEE
T ss_pred             CCCHHHHHHHHhCCCCceeccCCCceeeeec-eeee-----cCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhh
Confidence            789999987764332     22333332211 2222     336689999999953       23345677888899999


Q ss_pred             EEEeCCCCCChhHHHHHHHH-----HHcCCCcEEEEECCcchhhh
Q psy2609          70 IVVDCVEGICAQTQVALKQA-----WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~-----~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +++|+.............++     ...++|+++|+||+|+...+
T Consensus        85 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~  129 (180)
T d1udxa2          85 YVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEE  129 (180)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHH
T ss_pred             hhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhHH
Confidence            99998754332222222222     22468999999999997654

>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=99.15  E-value=3.8e-12  Score=91.99  Aligned_cols=100  Identities=15%  Similarity=0.070  Sum_probs=68.2

Q ss_pred             ccccccccCCc-----hhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCC
Q psy2609           2 LCMVSSYMDSR-----KDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVE   76 (161)
Q Consensus         2 ~~g~~~~~D~~-----~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~   76 (161)
                      ++|||+++.++     .++..+.+. +.....+...     ++.+.+.+||++|++.|......+++.+|++++|+|+++
T Consensus        15 ~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   88 (183)
T d1mh1a_          15 AVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVD-----GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVS   88 (183)
T ss_dssp             TSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEET-----TEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             CCCHHHHHHHHHhCCCCccccccee-eceeeeeecc-----CcceEEEeecccccccchhhhhhcccccceeeeeeccch
Confidence            58999997544     333333332 1122223333     557889999999999999999999999999999999986


Q ss_pred             CCChhHHH-HH-HHH--HHcCCCcEEEEECCcchh
Q psy2609          77 GICAQTQV-AL-KQA--WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        77 ~~~~~~~~-~~-~~~--~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..+..... .| ...  ...++|++||+||+|+..
T Consensus        89 ~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~  123 (183)
T d1mh1a_          89 PASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRD  123 (183)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchh
Confidence            44332221 12 211  224789999999999864

>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=99.12  E-value=7.6e-12  Score=90.74  Aligned_cols=101  Identities=14%  Similarity=0.082  Sum_probs=69.2

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCCh-
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICA-   80 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~-   80 (161)
                      ++|||+++.++.-...+.-|+......+.+.       ...+.+||++|++.+...+..+++.++++++++|.+..... 
T Consensus        12 ~vGKTsll~r~~f~~~~~pTiG~~~~~~~~~-------~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (200)
T d1zcba2          12 ESGKSTFLKQMRIIHGQDPTKGIHEYDFEIK-------NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVL   84 (200)
T ss_dssp             TSSHHHHHHHHHHHHSCCCCSSEEEEEEEET-------TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEE
T ss_pred             CCCHHHHHHHHhcCCCCCCeeeeEEEEEeee-------eeeeeeecccceeeecccccccccccceeEEEEEcCCcceee
Confidence            6899999988866665566666555556555       88999999999999999999999999999999999865421 


Q ss_pred             ----------hHHHHHHHH----HHcCCCcEEEEECCcchhhh
Q psy2609          81 ----------QTQVALKQA----WLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        81 ----------~~~~~~~~~----~~~~~p~ilv~NK~Dl~~~~  109 (161)
                                .....+..+    ...++|+++++||+|+....
T Consensus        85 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~  127 (200)
T d1zcba2          85 MEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEK  127 (200)
T ss_dssp             TTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHH
T ss_pred             eecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhh
Confidence                      111112211    13589999999999987543

>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=99.09  E-value=5.3e-12  Score=90.51  Aligned_cols=100  Identities=20%  Similarity=0.103  Sum_probs=61.3

Q ss_pred             ccccccccCCchhH------HHcCCccccceEEEEeecCCCCCCceeEEEEeCC---CchhhHHHHHHHHHhcCEEEEEE
Q psy2609           2 LCMVSSYMDSRKDE------QERGITMKSSSISLYYKDNKDTPEEYLINLIDSP---GHVDFSSEVSTAVRLCDGTIIVV   72 (161)
Q Consensus         2 ~~g~~~~~D~~~~E------~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTp---G~~~~~~~~~~~l~~~d~~ilVv   72 (161)
                      ++|||+++..+...      ..+.+..+.....+.+.     ++.+.+.+||+|   |+++|  ....+++.+|++|+|+
T Consensus        13 ~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvf   85 (172)
T d2g3ya1          13 GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVD-----GESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVY   85 (172)
T ss_dssp             TSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEET-----TEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEE
T ss_pred             CcCHHHHHHHHHhCcCCccccccceeeecceeeeccC-----Cceeeeeeeccccccccccc--cccccccccceeeeee
Confidence            57999997544211      11222233333344444     557788888866   56666  3456788999999999


Q ss_pred             eCCCCCChhHHHHH-HHHH----HcCCCcEEEEECCcchhh
Q psy2609          73 DCVEGICAQTQVAL-KQAW----LEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        73 d~~~~~~~~~~~~~-~~~~----~~~~p~ilv~NK~Dl~~~  108 (161)
                      |+++..+......| ..+.    ..++|+++|+||+|+...
T Consensus        86 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~  126 (172)
T d2g3ya1          86 SITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRC  126 (172)
T ss_dssp             ETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGG
T ss_pred             cccccchhhhhhhhhhhhhhccccCCceEEEEecccccccc
Confidence            99864333222222 2222    247899999999998754

>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=99.08  E-value=7.7e-12  Score=90.18  Aligned_cols=102  Identities=14%  Similarity=0.048  Sum_probs=63.1

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~i   69 (161)
                      |||||++++.+...+     .++.|.........+.      ...++.+|||||+.+       ........+..++.++
T Consensus        11 nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~------~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~   84 (185)
T d1lnza2          11 SVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETD------DGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIV   84 (185)
T ss_dssp             TSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECS------SSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEE
T ss_pred             CCCHHHHHHHHhCCCCceecCCCceEeeeeceeEec------CCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhh
Confidence            799999998774322     3455555444433332      256899999999732       2345566778899998


Q ss_pred             EEEeCCCCC--ChhHHHHH-HH-HH-----HcCCCcEEEEECCcchhhh
Q psy2609          70 IVVDCVEGI--CAQTQVAL-KQ-AW-----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        70 lVvd~~~~~--~~~~~~~~-~~-~~-----~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ++++.....  ........ .. ..     ..++|+++|+||+|+....
T Consensus        85 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~  133 (185)
T d1lnza2          85 HVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA  133 (185)
T ss_dssp             EEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH
T ss_pred             heeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH
Confidence            888765322  22221111 11 11     1367999999999997543

>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=99.04  E-value=1.2e-10  Score=83.88  Aligned_cols=96  Identities=14%  Similarity=-0.023  Sum_probs=60.3

Q ss_pred             ccccccccCCchhHH-HcCCc--cccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQ-ERGIT--MKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-~~git--i~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~   78 (161)
                      ++|||+++..+..+. +...+  ...-...+...     +..+.+.+|||+|++++.     +++.+|++|+|||.++.-
T Consensus        15 ~vGKTsLi~~~~~~~f~~~~~t~~~~~~~~i~v~-----~~~~~l~i~Dt~g~~~~~-----~~~~ad~~ilVfd~~~~~   84 (175)
T d2bmja1          15 RSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVD-----GQTHLVLIREEAGAPDAK-----FSGWADAVIFVFSLEDEN   84 (175)
T ss_dssp             TTTHHHHHHHHHHSCCCCCCCSSCEEEEEEEEET-----TEEEEEEEEECSSCCCHH-----HHHHCSEEEEEEETTCHH
T ss_pred             CCCHHHHHHHHHhCCCCCcCCccceeEEEEeecC-----ceEEEEEEeecccccccc-----cccccceeEEEeecccch
Confidence            689999886554322 11111  11111122233     667899999999998753     789999999999998644


Q ss_pred             ChhHHHHH-HHHH------HcCCCcEEEEECCcchh
Q psy2609          79 CAQTQVAL-KQAW------LEKIQPILVLNKIDRLI  107 (161)
Q Consensus        79 ~~~~~~~~-~~~~------~~~~p~ilv~NK~Dl~~  107 (161)
                      +......| ..+.      ..++|+++|+||.|+..
T Consensus        85 Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~  120 (175)
T d2bmja1          85 SFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISA  120 (175)
T ss_dssp             HHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCS
T ss_pred             hhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcch
Confidence            33332222 2221      24578999999988754

>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=99.04  E-value=1.4e-10  Score=80.52  Aligned_cols=102  Identities=13%  Similarity=-0.033  Sum_probs=72.2

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQ   81 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~   81 (161)
                      |+|||++++++..+.-...+...........     ...+++.+||+||...+......+++.++++++++|..+.....
T Consensus        10 ~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~   84 (160)
T d1r8sa_          10 AAGKTTILYKLKLGEIVTTIPTIGFNVETVE-----YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVN   84 (160)
T ss_dssp             TSSHHHHHHHHHHHCSSCCCCCSSCCEEEEE-----CSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHH
T ss_pred             CCCHHHHHHHHhcCCCCccccceeeEEEEEe-----eeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHH
Confidence            7999999988865553333333333333344     44889999999999999999999999999999999998644333


Q ss_pred             HHHH-HHHH----HHcCCCcEEEEECCcchhh
Q psy2609          82 TQVA-LKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        82 ~~~~-~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .... +...    ....+|+++++||+|+...
T Consensus        85 ~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~  116 (160)
T d1r8sa_          85 EAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (160)
T ss_dssp             HHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHHHHhhcccCceEEEEeeccccccc
Confidence            3221 1111    1246788999999998754

>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=98.93  E-value=1.3e-10  Score=86.58  Aligned_cols=100  Identities=19%  Similarity=0.123  Sum_probs=71.1

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCC---
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGI---   78 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~---   78 (161)
                      ++|||+++.++..+. .--|+......+.+.       +..+.+||++|++.+...+..+++.++++++|+|.+...   
T Consensus        16 ~vGKTsll~~~~~~~-~~pTiG~~~~~~~~~-------~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~   87 (221)
T d1azta2          16 ESGKSTIVKQMRILH-VVLTSGIFETKFQVD-------KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVI   87 (221)
T ss_dssp             TSSHHHHHHHHHHHH-CCCCCSCEEEEEEET-------TEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBC
T ss_pred             CCCHHHHHHHHhcCC-cCCCCCeEEEEEEEC-------cEEEEEEecCccceeccchhhhcccccceEEEEEcccccccc
Confidence            689999998875443 223444444455555       789999999999999999999999999999999987321   


Q ss_pred             ------Ch--hHHHHHHHHH----HcCCCcEEEEECCcchhhh
Q psy2609          79 ------CA--QTQVALKQAW----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        79 ------~~--~~~~~~~~~~----~~~~p~ilv~NK~Dl~~~~  109 (161)
                            ..  .....+..+.    -.++|++|++||+|+....
T Consensus        88 ~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k  130 (221)
T d1azta2          88 REDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEK  130 (221)
T ss_dssp             TTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhh
Confidence                  11  1112222222    1479999999999997654

>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=98.91  E-value=1.2e-10  Score=83.64  Aligned_cols=98  Identities=16%  Similarity=0.133  Sum_probs=71.3

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC--
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC--   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~--   79 (161)
                      .+|||+++.++....-+++.+.  ...+.+.       ...+.+|||+|++++...+..+++.++++++|+|.+....  
T Consensus        12 ~vGKTsl~~r~~~~~~~t~~~~--~~~~~~~-------~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~   82 (195)
T d1svsa1          12 ESGKSTIVKQMKIIHEAGTGIV--ETHFTFK-------DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVL   82 (195)
T ss_dssp             TSSHHHHHHHHHHHHSCCCSEE--EEEEEET-------TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBC
T ss_pred             CCCHHHHHHHHhhCCCCCccEE--EEEEEee-------eeeeeeeccccccccccchhhcccCCceeeeEEeecccchHH
Confidence            6899999988877666655543  2333333       7899999999999999999999999999999999863221  


Q ss_pred             -------hhH--HHHHHHH----HHcCCCcEEEEECCcchhh
Q psy2609          80 -------AQT--QVALKQA----WLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        80 -------~~~--~~~~~~~----~~~~~p~ilv~NK~Dl~~~  108 (161)
                             ...  ...|..+    ...++|+++++||+|+...
T Consensus        83 ~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~  124 (195)
T d1svsa1          83 AEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEE  124 (195)
T ss_dssp             SSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhh
Confidence                   111  1122222    1346899999999998654

>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=98.76  E-value=3.3e-09  Score=74.98  Aligned_cols=101  Identities=15%  Similarity=0.006  Sum_probs=64.1

Q ss_pred             ccccccccCCchhHHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||++++++....-.  ..+.......+..       ...++.+||++|++........++..++++++++|.++...
T Consensus        25 ~~GKSsLi~rl~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~   97 (177)
T d1zj6a1          25 NAGKTTILYQFSMNEVVHTSPTIGSNVEEIVI-------NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRER   97 (177)
T ss_dssp             TSSHHHHHHHHHTTSCEEEECCSCSSCEEEEE-------TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTT
T ss_pred             CCCHHHHHHHHhcCCCCccccccceeEEEEee-------cceEEEEeccccccccccchhhhhccceeeeeecccccccc
Confidence            79999999776543211  1111111122222       26899999999999888888999999999999999986554


Q ss_pred             hhHHHHH-H----HHHHcCCCcEEEEECCcchhhh
Q psy2609          80 AQTQVAL-K----QAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        80 ~~~~~~~-~----~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ....... .    .....+.|+++|+||+|+....
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~  132 (177)
T d1zj6a1          98 ISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM  132 (177)
T ss_dssp             HHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC
T ss_pred             hhhhhhhhhhhhhcccccceEEEEEEEcccccccC
Confidence            3332211 1    1123578999999999986543

>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=98.75  E-value=8.9e-10  Score=79.14  Aligned_cols=101  Identities=13%  Similarity=0.078  Sum_probs=69.5

Q ss_pred             ccccccccCCchhHHH-cCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC-
Q psy2609           2 LCMVSSYMDSRKDEQE-RGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC-   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~-~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~-   79 (161)
                      ++|||+++.++....- +--|+......+.+       +...+.+||++|++++...+..+++.++++++++|..+... 
T Consensus        12 ~vGKTsll~r~~~~~~~~~pTiG~~~~~~~~-------~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   84 (200)
T d2bcjq2          12 ESGKSTFIKQMRIIHGSGVPTTGIIEYPFDL-------QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQV   84 (200)
T ss_dssp             TSSHHHHHHHHHHHTSSCCCCCSCEEEEEEC-------SSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCB
T ss_pred             CCCHHHHHHHHhCCCCCCCceeeEEEEEEec-------cceeeeeccccccccccccccccccccceeeEeeeccchhhh
Confidence            6899999877744432 22233333333333       37899999999999999999999999999999999874311 


Q ss_pred             ----------hhHHHHHHHHH----HcCCCcEEEEECCcchhhh
Q psy2609          80 ----------AQTQVALKQAW----LEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        80 ----------~~~~~~~~~~~----~~~~p~ilv~NK~Dl~~~~  109 (161)
                                ......|..+.    ..++|+++++||+|+....
T Consensus        85 ~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~  128 (200)
T d2bcjq2          85 LVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEK  128 (200)
T ss_dssp             CSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHH
T ss_pred             hhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhc
Confidence                      11223333222    2478999999999997544

>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=98.62  E-value=3.8e-09  Score=85.19  Aligned_cols=98  Identities=17%  Similarity=0.069  Sum_probs=62.3

Q ss_pred             ccccccccCCchhH-----H--HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHH-----HHHHHHhcCEEE
Q psy2609           2 LCMVSSYMDSRKDE-----Q--ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSE-----VSTAVRLCDGTI   69 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~--~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~-----~~~~l~~~d~~i   69 (161)
                      ||||+++++.+...     .  ..|++--+. ....|..    ....++.||||||.......     ....+..+|.++
T Consensus        66 n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~-~~~~~~~----~~~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l  140 (400)
T d1tq4a_          66 GSGKSSFINTLRGIGNEEEGAAKTGVVEVTM-ERHPYKH----PNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFI  140 (400)
T ss_dssp             TSSHHHHHHHHHTCCTTSTTSCCCCC----C-CCEEEEC----SSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEE
T ss_pred             CCCHHHHHHHHhCCCcCCCccCCCCCCCCce-eeeeeec----cCCCeEEEEeCCCcccccccHHHHHHHhhhhcceEEE
Confidence            79999999877531     1  112211111 1122221    22446899999997542211     223345678887


Q ss_pred             EEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          70 IVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        70 lVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.|.  .+...+..++..+...++|+++|.||+|..
T Consensus       141 ~~~~~--~~~~~d~~l~~~l~~~~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         141 IISAT--RFKKNDIDIAKAISMMKKEFYFVRTKVDSD  175 (400)
T ss_dssp             EEESS--CCCHHHHHHHHHHHHTTCEEEEEECCHHHH
T ss_pred             EecCC--CCCHHHHHHHHHHHHcCCCEEEEEeCcccc
Confidence            77764  467788888888888999999999999975

>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=98.60  E-value=1.7e-08  Score=69.51  Aligned_cols=99  Identities=14%  Similarity=0.081  Sum_probs=69.2

Q ss_pred             ccccccccCCchhHHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      |||||++++++..+.-.  +-|+......  ..     .+..++.+||++|...+......++..++++++++|..+...
T Consensus        10 nvGKSSLln~l~~~~~~~~~~t~~~~~~~--~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~   82 (166)
T d2qtvb1          10 NAGKTTLLHMLKNDRLATLQPTWHPTSEE--LA-----IGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPER   82 (166)
T ss_dssp             TSSHHHHHHHHHHSCCCCCCCCCSCEEEE--EC-----CTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhCCCCCeeeceeeEeEEE--ec-----cCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhh
Confidence            79999999887655422  2233322222  22     337789999999999988888899999999999999986544


Q ss_pred             hhHHHHHH-HH----HHcCCCcEEEEECCcchh
Q psy2609          80 AQTQVALK-QA----WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~~~~-~~----~~~~~p~ilv~NK~Dl~~  107 (161)
                      ......+. ..    ...+.|+++++||+|+..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~  115 (166)
T d2qtvb1          83 FDEARVELDALFNIAELKDVPFVILGNKIDAPN  115 (166)
T ss_dssp             HHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSS
T ss_pred             hhhhhHHHHhhhhhhccCCceEEEEeccccccc
Confidence            33322221 11    124788899999999864

>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=98.51  E-value=7.2e-08  Score=66.69  Aligned_cols=102  Identities=12%  Similarity=-0.083  Sum_probs=69.3

Q ss_pred             ccccccccCCchhHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChh
Q psy2609           2 LCMVSSYMDSRKDEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQ   81 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~   81 (161)
                      +||||+++.++....-...+.........+.     .+.+.+.++|++|+..+.......+..++++++++|........
T Consensus        15 ~vGKSSLi~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (169)
T d1upta_          15 GAGKTTILYRLQVGEVVTTIPTIGFNVETVT-----YKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIG   89 (169)
T ss_dssp             TSSHHHHHHHHHHSSCCCCCCCSSEEEEEEE-----ETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHH
T ss_pred             CCCHHHHHHHHhCCCCcceecccceeeeeec-----cCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhh
Confidence            7999999877754432222222222223333     33789999999999999888888899999999999988655433


Q ss_pred             HHHHH-HH----HHHcCCCcEEEEECCcchhh
Q psy2609          82 TQVAL-KQ----AWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        82 ~~~~~-~~----~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ..... ..    ......|+++++||+|+...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~  121 (169)
T d1upta_          90 ISKSELVAMLEEEELRKAILVVFANKQDMEQA  121 (169)
T ss_dssp             HHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             hccchhhhhhhhhccccceEEEEEeecccccc
Confidence            32221 11    12346788899999999754

>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=98.36  E-value=1e-06  Score=66.49  Aligned_cols=100  Identities=15%  Similarity=0.045  Sum_probs=62.9

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchh-------hHHHHHHHH--HhcC
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVD-------FSSEVSTAV--RLCD   66 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~-------~~~~~~~~l--~~~d   66 (161)
                      ++|||++++..-.+.      .++.|.........+.       +.++.+|||||..+       ....+....  ...+
T Consensus        42 g~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~-------g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~  114 (257)
T d1h65a_          42 GVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRA-------GFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTID  114 (257)
T ss_dssp             TSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEET-------TEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEEC
T ss_pred             CCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEec-------cEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCC
Confidence            689999876665432      3455655554444444       67999999999742       222232222  2357


Q ss_pred             EEEEEEeCCCC-CChhHHHHHHHHHH-----cCCCcEEEEECCcchhh
Q psy2609          67 GTIIVVDCVEG-ICAQTQVALKQAWL-----EKIQPILVLNKIDRLIL  108 (161)
Q Consensus        67 ~~ilVvd~~~~-~~~~~~~~~~~~~~-----~~~p~ilv~NK~Dl~~~  108 (161)
                      ++++|++.+.. +...+...+..+..     .-.++|+|.||+|....
T Consensus       115 ~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~  162 (257)
T d1h65a_         115 VLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPP  162 (257)
T ss_dssp             EEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCG
T ss_pred             eEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCc
Confidence            88899888653 55555555544432     12467999999998753

>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=98.33  E-value=8.6e-08  Score=67.57  Aligned_cols=100  Identities=16%  Similarity=0.153  Sum_probs=61.5

Q ss_pred             ccccccccCCchhHH-----HcCCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHH---------HhcCE
Q psy2609           2 LCMVSSYMDSRKDEQ-----ERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAV---------RLCDG   67 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~-----~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l---------~~~d~   67 (161)
                      |+|||++++.+-...     ..+.|...... ..+.     .....+.++|+||............         ..+++
T Consensus        15 nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~-~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (179)
T d1egaa1          15 NVGKSTLLNKLLGQKISITSRKAQTTRHRIV-GIHT-----EGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVEL   88 (179)
T ss_dssp             SSSHHHHHHHHHTCSEEECCCCSSCCSSCEE-EEEE-----ETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEE
T ss_pred             CCCHHHHHHHHhCCCceeeccCCCceEEEEE-eeee-----cCCceeEeecCCCceecchhhhhhhhhhccccchhhcce
Confidence            799999998885432     12222222222 2222     2266788899999765433322221         23577


Q ss_pred             EEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          68 TIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        68 ~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      ++++.|... ...+...+...+.....|.++|+||+|....
T Consensus        89 ~l~~~d~~~-~~~~~~~~~~~l~~~~~~~i~v~~k~d~~~~  128 (179)
T d1egaa1          89 VIFVVEGTR-WTPDDEMVLNKLREGKAPVILAVNKVDNVQE  128 (179)
T ss_dssp             EEEEEETTC-CCHHHHHHHHHHHSSSSCEEEEEESTTTCCC
T ss_pred             eEEEEecCc-cchhHHHHHHHhhhccCceeeeeeeeeccch
Confidence            888888764 3455555556666678899999999998754

>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=98.27  E-value=1.3e-07  Score=66.38  Aligned_cols=99  Identities=18%  Similarity=0.199  Sum_probs=62.8

Q ss_pred             ccccccccCCchhHHHc--CCccccceEEEEeecCCCCCCceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCC
Q psy2609           2 LCMVSSYMDSRKDEQER--GITMKSSSISLYYKDNKDTPEEYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGIC   79 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~~~--giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~   79 (161)
                      +||||++++.+..+.-.  ..+.......+.+.       ...+.++|++|+..+.......++..+++++++|......
T Consensus        23 ~vGKTsLl~~l~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~   95 (186)
T d1f6ba_          23 NAGKTTLLHMLKDDRLGQHVPTLHPTSEELTIA-------GMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHER   95 (186)
T ss_dssp             TSSHHHHHHHHSCC------CCCCCSCEEEEET-------TEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGG
T ss_pred             CCCHHHHHHHHhCCCCcceecccccceeEEEec-------ccccccccccchhhhhhHHhhhhcccceeeeeeeccCccc
Confidence            68999998776543321  11222233334444       6789999999999888888899999999999999876433


Q ss_pred             hhHHH-HH-HHH---HHcCCCcEEEEECCcchh
Q psy2609          80 AQTQV-AL-KQA---WLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        80 ~~~~~-~~-~~~---~~~~~p~ilv~NK~Dl~~  107 (161)
                      ..... .+ ...   ...++|+++++||.|+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~  128 (186)
T d1f6ba_          96 LLESKEELDSLMTDETIANVPILILGNKIDRPE  128 (186)
T ss_dssp             HHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             hHHHHHHHHHhhcccccCCCceEEEEeccCccc
Confidence            22221 11 111   124799999999999865

>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=98.22  E-value=1.5e-06  Score=60.82  Aligned_cols=45  Identities=20%  Similarity=0.257  Sum_probs=35.5

Q ss_pred             cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          65 CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        65 ~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .+.++.+.+...+...+....+........++++++||+|+....
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~k~D~~~~~  143 (188)
T d1puia_          99 LQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASG  143 (188)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCHH
T ss_pred             eeEEEEeecccccchhHHHHHHHHhhhccccccchhhhhhccCHH
Confidence            446666777777777777777777778889999999999987643

>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=98.03  E-value=2.3e-06  Score=65.00  Aligned_cols=55  Identities=20%  Similarity=0.178  Sum_probs=44.8

Q ss_pred             hhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          53 DFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        53 ~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      +..++....+..+|++|+|+|+..+.+.....+.+.+.  ++|+|+|+||+|+...+
T Consensus         4 ka~r~i~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~--~Kp~IlVlNK~DLv~~~   58 (273)
T d1puja_           4 KARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDILK--NKPRIMLLNKADKADAA   58 (273)
T ss_dssp             HHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS--SSCEEEEEECGGGSCHH
T ss_pred             HHHHHHHHHHHhCCEEEEEEECCCCCCCCCHHHHHHHc--CCCeEEEEECccCCchH
Confidence            45567888999999999999999888777666655553  78999999999997644

>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=98.02  E-value=6.5e-06  Score=60.05  Aligned_cols=69  Identities=23%  Similarity=0.110  Sum_probs=50.0

Q ss_pred             eeEEEEeCCCchhhHHHHHHHHHh-----cCEEEEEEeCCCCCChhHHHHHHH-----HHHcCCCcEEEEECCcchhhh
Q psy2609          41 YLINLIDSPGHVDFSSEVSTAVRL-----CDGTIIVVDCVEGICAQTQVALKQ-----AWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        41 ~~i~iiDTpG~~~~~~~~~~~l~~-----~d~~ilVvd~~~~~~~~~~~~~~~-----~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      ..+.++||||+..+...+......     .+++++++|+..+..++.......     ......|.++|+||+|+...+
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccHH
Confidence            469999999998876554443332     458999999988877766543322     224578999999999998754

>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=97.39  E-value=0.00022  Score=53.74  Aligned_cols=67  Identities=16%  Similarity=0.155  Sum_probs=46.2

Q ss_pred             eeEEEEeCCCch-------------hhHHHHHHHHHhcCE-EEEEEeCCCCCChhH-HHHHHHHHHcCCCcEEEEECCcc
Q psy2609          41 YLINLIDSPGHV-------------DFSSEVSTAVRLCDG-TIIVVDCVEGICAQT-QVALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        41 ~~i~iiDTpG~~-------------~~~~~~~~~l~~~d~-~ilVvd~~~~~~~~~-~~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      ..+.|+||||..             .....+..|+...+. +++|.++........ ..+.+.+.....+.++|+||+|+
T Consensus       125 ~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~~~r~i~Vltk~D~  204 (299)
T d2akab1         125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLDL  204 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGGG
T ss_pred             CCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcCCCceeeEEecccc
Confidence            358999999962             134567778877775 455777766555444 34445555556788999999998


Q ss_pred             hh
Q psy2609         106 LI  107 (161)
Q Consensus       106 ~~  107 (161)
                      ..
T Consensus       205 ~~  206 (299)
T d2akab1         205 MD  206 (299)
T ss_dssp             SC
T ss_pred             cc
Confidence            65

>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=97.24  E-value=0.00039  Score=52.61  Aligned_cols=67  Identities=19%  Similarity=0.229  Sum_probs=45.5

Q ss_pred             eeEEEEeCCCchh-------------hHHHHHHHHHhcCEEEE-EEeCCCCCC-hhHHHHHHHHHHcCCCcEEEEECCcc
Q psy2609          41 YLINLIDSPGHVD-------------FSSEVSTAVRLCDGTII-VVDCVEGIC-AQTQVALKQAWLEKIQPILVLNKIDR  105 (161)
Q Consensus        41 ~~i~iiDTpG~~~-------------~~~~~~~~l~~~d~~il-Vvd~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl  105 (161)
                      ..+.||||||.-.             ....+..|+..++.+++ |.++..... .....+.+.+.....+.++|+||+|.
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~~~~r~i~Vitk~D~  210 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLDL  210 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTTS
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCcCCCeEEEEEecccc
Confidence            4689999999632             34568888999997655 456554443 33344555554456688999999998


Q ss_pred             hh
Q psy2609         106 LI  107 (161)
Q Consensus       106 ~~  107 (161)
                      ..
T Consensus       211 ~~  212 (306)
T d1jwyb_         211 MD  212 (306)
T ss_dssp             SC
T ss_pred             cc
Confidence            64

>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=96.66  E-value=0.00023  Score=52.42  Aligned_cols=47  Identities=21%  Similarity=0.190  Sum_probs=33.6

Q ss_pred             HhcCEEEEEEeCCCC-CCh-hHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          63 RLCDGTIIVVDCVEG-ICA-QTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        63 ~~~d~~ilVvd~~~~-~~~-~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .+.|.+++|+++..+ ... .-..++-.+...++|.+||+||+||...+
T Consensus         9 ANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~i~pvIvlnK~DL~~~~   57 (225)
T d1u0la2           9 ANVDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDED   57 (225)
T ss_dssp             ESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCEEEEEECCGGGCCHH
T ss_pred             ccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHcCCCEEEEEeCcccCCHH
Confidence            567999999988753 222 22334455567899999999999997644

>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=96.21  E-value=0.00042  Score=52.81  Aligned_cols=35  Identities=23%  Similarity=0.417  Sum_probs=22.5

Q ss_pred             eeEEEEeCCCchh-------hHHHHHHHHHhcCEEEEEEeCC
Q psy2609          41 YLINLIDSPGHVD-------FSSEVSTAVRLCDGTIIVVDCV   75 (161)
Q Consensus        41 ~~i~iiDTpG~~~-------~~~~~~~~l~~~d~~ilVvd~~   75 (161)
                      .++.++|+||.-.       +.......++.+|+++.|+|+.
T Consensus        71 ~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETT
T ss_pred             ccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            5799999999643       2223444567899999999986

>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=96.18  E-value=0.0016  Score=48.00  Aligned_cols=46  Identities=24%  Similarity=0.260  Sum_probs=32.6

Q ss_pred             HhcCEEEEEEeCCCC-CC-hhHHHHHHHHHHcCCCcEEEEECCcchhh
Q psy2609          63 RLCDGTIIVVDCVEG-IC-AQTQVALKQAWLEKIQPILVLNKIDRLIL  108 (161)
Q Consensus        63 ~~~d~~ilVvd~~~~-~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~  108 (161)
                      .+.|.+++|+++.++ +. ..-...+-.+...++|.+||+||+||...
T Consensus         9 ANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~pvIvlnK~DL~~~   56 (231)
T d1t9ha2           9 CNVDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIED   56 (231)
T ss_dssp             ECCCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCEEEEEEECGGGCCC
T ss_pred             cccCEEEEEEECCCCCCCHHHHHHHHHHHHHcCCCEEEEEeccccccc
Confidence            467999999998643 32 22233444555679999999999999753

>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=95.94  E-value=0.0019  Score=48.79  Aligned_cols=75  Identities=15%  Similarity=0.183  Sum_probs=50.1

Q ss_pred             ccccccccCCchhHH------HcCCccccceEEEEeecCC-------CCC---CceeEEEEeCCCchh-------hHHHH
Q psy2609           2 LCMVSSYMDSRKDEQ------ERGITMKSSSISLYYKDNK-------DTP---EEYLINLIDSPGHVD-------FSSEV   58 (161)
Q Consensus         2 ~~g~~~~~D~~~~E~------~~giti~~~~~~~~~~~~~-------~~~---~~~~i~iiDTpG~~~-------~~~~~   58 (161)
                      ||||||+++.+....      -++.|++.+...+.+...-       ...   ....+.|+|.||...       +....
T Consensus        20 n~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLGn~f   99 (296)
T d1ni3a1          20 NVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNAF   99 (296)
T ss_dssp             SSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHHH
T ss_pred             CCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccccccccccHHHH
Confidence            799999987765432      2467777665555432100       000   024789999999532       44567


Q ss_pred             HHHHHhcCEEEEEEeCCC
Q psy2609          59 STAVRLCDGTIIVVDCVE   76 (161)
Q Consensus        59 ~~~l~~~d~~ilVvd~~~   76 (161)
                      ...++.+|+++.|+|+..
T Consensus       100 L~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1         100 LSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             HHHHTTCSEEEEEEECCC
T ss_pred             HHHhhccceeEEEEeccC
Confidence            888999999999999864

>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=95.85  E-value=0.0037  Score=44.56  Aligned_cols=66  Identities=17%  Similarity=0.137  Sum_probs=49.0

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~~  107 (161)
                      .+.++++|||+..  ...+...+..+|.+++++.............++.+.+.++|++ +++||.+...
T Consensus       111 ~~d~IiiD~~~~~--~~~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~giv~N~~~~~~  177 (237)
T d1g3qa_         111 KFDFILIDCPAGL--QLDAMSAMLSGEEALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRYGRSD  177 (237)
T ss_dssp             GCSEEEEECCSSS--SHHHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEEEEEEETSCT
T ss_pred             cCCEEEEcccccc--cccchhhhhhhhcccccccccceecchhhHHHHHHhhhhhhhhhhhhccccccc
Confidence            5789999999864  3456677888999999998763323444555666777888987 8999998643

>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=95.16  E-value=0.0099  Score=44.19  Aligned_cols=74  Identities=18%  Similarity=0.205  Sum_probs=44.3

Q ss_pred             ccccccccCCchhH-----HHcCCccccceEEEEeecCC-------CCCC---ceeEEEEeCCCchh-------hHHHHH
Q psy2609           2 LCMVSSYMDSRKDE-----QERGITMKSSSISLYYKDNK-------DTPE---EYLINLIDSPGHVD-------FSSEVS   59 (161)
Q Consensus         2 ~~g~~~~~D~~~~E-----~~~giti~~~~~~~~~~~~~-------~~~~---~~~i~iiDTpG~~~-------~~~~~~   59 (161)
                      |+||||+++.+..-     .=+..|++.+...+.....-       ++.+   ..++.|+|.||.-.       +.....
T Consensus        12 n~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~g~Glg~~FL   91 (278)
T d1jala1          12 NVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGNKFL   91 (278)
T ss_dssp             TSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTCCHH
T ss_pred             CCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcccCCCccHHHH
Confidence            79999998755422     22455555444433321000       0011   12588999999633       222467


Q ss_pred             HHHHhcCEEEEEEeCC
Q psy2609          60 TAVRLCDGTIIVVDCV   75 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~   75 (161)
                      +.++.+|+++.|+|+.
T Consensus        92 ~~ir~~d~LihVVr~f  107 (278)
T d1jala1          92 ANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHHHTCSEEEEEEECS
T ss_pred             HHHHhccceEEEeecc
Confidence            8899999999999874

>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=93.39  E-value=0.22  Score=35.32  Aligned_cols=65  Identities=20%  Similarity=0.242  Sum_probs=37.7

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHh--------cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRL--------CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~--------~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.++||||||...    ...+.....+.        .+-.++|+|++.+... ...........+ +-=++++|+|-.
T Consensus        88 ~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~-~~~~~~~~~~~~-~~~lI~TKlDet  164 (207)
T d1okkd2          88 GYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNG-LEQAKKFHEAVG-LTGVIVTKLDGT  164 (207)
T ss_dssp             TCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHH-HHHHHHHHHHHC-CSEEEEECTTSS
T ss_pred             CCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchH-HHHHHHhhhccC-CceEEEeccCCC
Confidence            46799999999532    22233222222        3578999999866432 223333333333 335789999964

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.22  E-value=0.053  Score=38.12  Aligned_cols=65  Identities=18%  Similarity=0.167  Sum_probs=43.4

Q ss_pred             ceeEEEEeCCCchhhHHHHHHHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcE-EEEECCcch
Q psy2609          40 EYLINLIDSPGHVDFSSEVSTAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPI-LVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~~~~~~~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~i-lv~NK~Dl~  106 (161)
                      .+-++++|||+...  ..+...+..+|.+++|.......-.............+.+++ +++||.+..
T Consensus       109 ~~D~viiD~~~~~~--~~~~~~l~~ad~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~N~~~~~  174 (232)
T d1hyqa_         109 STDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVNRITTL  174 (232)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSSHHHHHHHHHHHHHHHHHTCEEEEEEEEEECTT
T ss_pred             ccceeeeccccccc--chhHHHhhhhheeeeeccccccchhhhhhhhhhhhhcccccccccccccccc
Confidence            45689999999753  455667788999999998752111222333445556677765 789998753

>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=93.21  E-value=0.014  Score=43.22  Aligned_cols=40  Identities=20%  Similarity=0.243  Sum_probs=21.3

Q ss_pred             ccccccccCCch------hHHHcCCccccceEEEEeecCCCCCCceeEEEEeCCCc
Q psy2609           2 LCMVSSYMDSRK------DEQERGITMKSSSISLYYKDNKDTPEEYLINLIDSPGH   51 (161)
Q Consensus         2 ~~g~~~~~D~~~------~E~~~giti~~~~~~~~~~~~~~~~~~~~i~iiDTpG~   51 (161)
                      |+||+++++.+.      -...+|+|.+....   +.       +..+.++||||.
T Consensus       122 NvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i---~~-------~~~~~l~DTPGi  167 (273)
T d1puja_         122 NVGKSTLINRLAKKNIAKTGDRPGITTSQQWV---KV-------GKELELLDTPGI  167 (273)
T ss_dssp             TSSHHHHHHHHHTSCCC------------CCE---EE-------TTTEEEEECCCC
T ss_pred             ccchhhhhhhhhccceEEECCcccccccceEE---EC-------CCCeEEecCCCc
Confidence            899999986665      34567888765433   22       346999999996

>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=92.49  E-value=0.19  Score=35.90  Aligned_cols=65  Identities=20%  Similarity=0.216  Sum_probs=35.8

Q ss_pred             ceeEEEEeCCCchhh----HHHHHHHHHh--------cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVDF----SSEVSTAVRL--------CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~----~~~~~~~l~~--------~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.++||||||....    ..+.....+.        .+-.++|+|++.+... ...........+ +-=++++|+|-.
T Consensus        93 ~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~-~~~~~~~~~~~~-~~~lI~TKlDe~  169 (213)
T d1vmaa2          93 NKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNG-LVQAKIFKEAVN-VTGIILTKLDGT  169 (213)
T ss_dssp             TCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHH-HHHHHHHHHHSC-CCEEEEECGGGC
T ss_pred             CCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcch-hhhhhhhccccC-CceEEEecccCC
Confidence            457999999995332    2223333332        2568999999743211 122222222222 335889999964

>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=92.38  E-value=0.37  Score=34.21  Aligned_cols=65  Identities=18%  Similarity=0.195  Sum_probs=36.5

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHHHh--------cCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAVRL--------CDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l~~--------~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      ++.++||||||...    ...+.....+.        .+-.++|+|+..+.... ..........+ +-=++++|.|-.
T Consensus        91 ~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~-~~~~~~~~~~~-~~~lIlTKlDe~  167 (211)
T d2qy9a2          91 NIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAV-SQAKLFHEAVG-LTGITLTKLDGT  167 (211)
T ss_dssp             TCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHH-HHHHHHHHHSC-CCEEEEECCTTC
T ss_pred             CCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchH-HHHhhhhhccC-CceEEEeecCCC
Confidence            45789999999432    22333333322        24789999998543221 22222222222 335889999964

>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=91.66  E-value=0.27  Score=34.75  Aligned_cols=64  Identities=20%  Similarity=0.190  Sum_probs=36.0

Q ss_pred             ceeEEEEeCCCchh----hHHHHHHHH--HhcCEEEEEEeCCCCCChhHHHHH-HHHHHcCCCcEEEEECCcch
Q psy2609          40 EYLINLIDSPGHVD----FSSEVSTAV--RLCDGTIIVVDCVEGICAQTQVAL-KQAWLEKIQPILVLNKIDRL  106 (161)
Q Consensus        40 ~~~i~iiDTpG~~~----~~~~~~~~l--~~~d~~ilVvd~~~~~~~~~~~~~-~~~~~~~~p~ilv~NK~Dl~  106 (161)
                      .+.++||||||...    ...+.....  ...+-.++|+|+..+.  ...... ......+ +-=++++|+|-.
T Consensus        92 ~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~--~~~~~~~~f~~~~~-~~~~I~TKlDe~  162 (207)
T d1ls1a2          92 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQ--EALSVARAFDEKVG-VTGLVLTKLDGD  162 (207)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTH--HHHHHHHHHHHHTC-CCEEEEECGGGC
T ss_pred             cCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccch--hHHHHHHHHHhhCC-CCeeEEeecCcc
Confidence            45799999999532    222332222  2357889999987542  222222 2222222 224889999964

>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=89.88  E-value=0.68  Score=32.72  Aligned_cols=66  Identities=23%  Similarity=0.290  Sum_probs=37.3

Q ss_pred             ceeEEEEeCCCchhh------HHHHHHHHH--hcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchh
Q psy2609          40 EYLINLIDSPGHVDF------SSEVSTAVR--LCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLI  107 (161)
Q Consensus        40 ~~~i~iiDTpG~~~~------~~~~~~~l~--~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  107 (161)
                      ++.++||||||...+      ..+......  ..+-.++|+++..+.... ..........++ -=++++|.|-..
T Consensus        94 ~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~-~~~~~~~~~~~~-~~lI~TKlDet~  167 (211)
T d1j8yf2          94 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAY-DLASKFNQASKI-GTIIITKMDGTA  167 (211)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH-HHHHHHHHHCTT-EEEEEECTTSCS
T ss_pred             CCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchH-HHHhhhhcccCc-ceEEEecccCCC
Confidence            468999999995321      122222222  246789999998654322 222232222232 246799999753

>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=86.22  E-value=0.035  Score=40.50  Aligned_cols=11  Identities=27%  Similarity=0.600  Sum_probs=8.6

Q ss_pred             EEEeCCCchhh
Q psy2609          44 NLIDSPGHVDF   54 (161)
Q Consensus        44 ~iiDTpG~~~~   54 (161)
                      .++||||...|
T Consensus       151 ~iiDTPG~r~~  161 (231)
T d1t9ha2         151 LVADTPGFSSL  161 (231)
T ss_dssp             EEESSCSCSSC
T ss_pred             EEEECCccccc
Confidence            48899998654

>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=84.56  E-value=0.18  Score=38.29  Aligned_cols=46  Identities=20%  Similarity=0.068  Sum_probs=25.0

Q ss_pred             HHHHhcCEEEEEEeCCCCCChhHHHHHHHHHHcCCCcEEEEECCcchhhh
Q psy2609          60 TAVRLCDGTIIVVDCVEGICAQTQVALKQAWLEKIQPILVLNKIDRLILE  109 (161)
Q Consensus        60 ~~l~~~d~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  109 (161)
                      .....+|.+++|.....|-..|.... ..+   .++=++|+||+|+....
T Consensus       163 ~i~~~aD~~l~v~~P~~Gd~iq~~k~-gi~---e~aDi~VvNKaD~~~~~  208 (327)
T d2p67a1         163 EVARMVDCFISLQIAGGGDDLQGIKK-GLM---EVADLIVINKDDGDNHT  208 (327)
T ss_dssp             HHHTTCSEEEEEECC------CCCCH-HHH---HHCSEEEECCCCTTCHH
T ss_pred             hhhhccceEEEEecCCCchhhhhhch-hhh---ccccEEEEEeecccchH
Confidence            34556899999987764432221110 111   23569999999987543